Resource Type:
Polypeptide
Name:
DCAR_012360
Identifier:
DCAR_012360.mRNA-protein
Sequence:
MSLRPNARTEVRRSKYKVAVDADEGRRRREDNMVEIRKNRREENLQKKRR
EGVQAPQLENLSATAVQIEQRLESLPAMVAGVFSEDGSLRLEATSHFRKL
LSIERNPPIEEVIKSGVVPRFVEFLGRDDYPQLQFEAAWALTNIASGTSD
HTKVVIDHGAIPVFIRLLTSASDDVREQAVWALGNVAGDSPKCRDLVLAH
GALMPLLAQFNEHAKISMLRNATWTLSNFCRGKPQPHFEQTKPALPALAK
LITSNDEEVLTDACWAFSYLSDGTNDKIQAVIDSGVCGRLVELLYHPSSS
VLIPALRTVGNIVTGDDMQTQVIIQHQALPCLLNLLTNNHKKSIKKEACW
TISNITAGNSEQIQAVIEAGIIGPLVQLLGTAEFEIKKEAAWAVSNATSG
GTHEQLKYISLHFLSCPLVQLLGTAEFEIKKEAAWAVSNATSGGTHEQLK
FLVSQGCIKPLCDLLNCPDPRIVTVALEGLENILKVGEAEKNLGHTGDVN
VYAQLIDEAEGLEKIENLQSHDNNEIYEKSVKLLETYWLEDDDEQLPGGD
TAQSELKFAGNGPSVPSGGFSFS*
Sequence Length:
574
Sequence Checksum:
3a20bb4478cb9b33acee0e4dfb73d40c
View location in JBrowse:
Organism:
Relationship:
| Relationships |
|---|
| The polypeptide, DCAR_012360, derives from mRNA, DCAR_012360. |
Blast Results:
The following BLAST results are available for this feature:
BLAST of DCAR_012360 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Analysis Date: 2021-12-09
Analysis Name: DCAR peptide blastp to SwissProt and TrEMBL without DCAR
Total hits: 20
Analysis Date: 2021-12-09
Analysis Name: DCAR peptide blastp to SwissProt and TrEMBL without DCAR
Total hits: 20
BLAST of DCAR_012360 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A6L5BEL7 (Importin subunit alpha {ECO:0000256|PIRNR:PIRNR005673})
HSP 1 Score: 910.212 bits (2351), Expect = 0.000e+0
Identity = 456/572 (79.72%), Postives = 502/572 (87.76%), Query Frame = 0
Match: A0A6L5BEL7 (Importin subunit alpha {ECO:0000256|PIRNR:PIRNR005673})
HSP 1 Score: 910.212 bits (2351), Expect = 0.000e+0
Identity = 456/572 (79.72%), Postives = 502/572 (87.76%), Query Frame = 0
Query: 1 MSLRPNARTEVRRSKYKVAVDADEGRRRREDNMVEIRKNRREENLQKKRREGVQAPQLENLSATAVQIEQRLESLPAMVAGVFSEDGSLRLEATSHFRKLLSIERNPPIEEVIKSGVVPRFVEFLGRDDYPQLQFEAAWALTNIASGTSDHTKVVIDHGAIPVFIRLLTSASDDVREQAVWALGNVAGDSPKCRDLVLAHGALMPLLAQFNEHAKISMLRNATWTLSNFCRGKPQPHFEQTKPALPALAKLITSNDEEVLTDACWAFSYLSDGTNDKIQAVIDSGVCGRLVELLYHPSSSVLIPALRTVGNIVTGDDMQTQVIIQHQALPCLLNLLTNNHKKSIKKEACWTISNITAGNSEQIQAVIEAGIIGPLVQLLGTAEFEIKKEAAWAVSNATSGGTHEQLKYISLHFLSCPLVQLLGTAEFEIKKEAAWAVSNATSGGTHEQLKFLVSQGCIKPLCDLLNCPDPRIVTVALEGLENILKVGEAEKNLGHTGDVNVYAQLIDEAEGLEKIENLQSHDNNEIYEKSVKLLETYWLEDDDEQLPGGDTAQSELKFAGNGPSVPSGGFSF 572
MSLRPNARTEVRRS+YKVAVDADEGRRRREDNMVEIRKNRREE+L KKRREG+QA Q ++TA Q+E++LE LPAMVAGV+S+DG++RLEAT+HFRKLLSIERNPPIEEVI+SGVVPRF+EFLGRDDYPQLQFEAAWALTNIASGTS+HTKVVI+HGAIP+F+RLL S+SDDVREQAVWALGNVAGDSPKCRDLVL+H AL+PLLAQFNE+AK+SMLRNATWTLSNFCRGKPQPHF+QTKPALPALA+LI SNDEEVLTDACWA SYLSDGTNDKIQAVID+GVC RLVELL HPS+SVLIPALRTVGNIVTGDDMQTQVIIQHQAL CLLNLLTNN KKSIKKEACWTISNITAGN EQIQAVIEAGII PL++LL AEF+IKKEAAWAVSNATSGGT+EQ+K+ LV+QGCIKPLCDLL CPD RI+TV LEGLENILKVGE EK LG+TGDVNVYAQLIDEAEGLEKIENLQSHDNNEIYEK+VK+LETYWLE+DDEQLP GDT+QS L+F+G+GP+VPSGGF+F
Sbjct: 1 MSLRPNARTEVRRSRYKVAVDADEGRRRREDNMVEIRKNRREESLLKKRREGLQAHQF---NSTAAQLEKKLEGLPAMVAGVWSDDGNMRLEATTHFRKLLSIERNPPIEEVIQSGVVPRFIEFLGRDDYPQLQFEAAWALTNIASGTSEHTKVVIEHGAIPIFVRLLASSSDDVREQAVWALGNVAGDSPKCRDLVLSHDALVPLLAQFNENAKLSMLRNATWTLSNFCRGKPQPHFDQTKPALPALARLIHSNDEEVLTDACWALSYLSDGTNDKIQAVIDAGVCPRLVELLLHPSASVLIPALRTVGNIVTGDDMQTQVIIQHQALLCLLNLLTNNQKKSIKKEACWTISNITAGNKEQIQAVIEAGIIAPLIKLLDNAEFDIKKEAAWAVSNATSGGTNEQIKF-------------------------------------------LVNQGCIKPLCDLLVCPDARIITVCLEGLENILKVGETEKALGNTGDVNVYAQLIDEAEGLEKIENLQSHDNNEIYEKAVKILETYWLEEDDEQLPMGDTSQSGLEFSGSGPAVPSGGFNF 526
BLAST of DCAR_012360 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A834L6D4 ((Uncharacterized protein {ECO:0000313|EMBL:KAF7119860.1}))
HSP 1 Score: 909.827 bits (2350), Expect = 0.000e+0
Identity = 449/574 (78.22%), Postives = 489/574 (85.19%), Query Frame = 0
Match: A0A834L6D4 ((Uncharacterized protein {ECO:0000313|EMBL:KAF7119860.1}))
HSP 1 Score: 909.827 bits (2350), Expect = 0.000e+0
Identity = 449/574 (78.22%), Postives = 489/574 (85.19%), Query Frame = 0
Query: 1 MSLRPNARTEVRRSKYKVAVDADEGRRRREDNMVEIRKNRREENLQKKRREGVQAPQLENLSATAVQIEQRLESLPAMVAGVFSEDGSLRLEATSHFRKLLSIERNPPIEEVIKSGVVPRFVEFLGRDDYPQLQFEAAWALTNIASGTSDHTKVVIDHGAIPVFIRLLTSASDDVREQAVWALGNVAGDSPKCRDLVLAHGALMPLLAQFNEHAKISMLRNATWTLSNFCRGKPQPHFEQTKPALPALAKLITSNDEEVLTDACWAFSYLSDGTNDKIQAVIDSGVCGRLVELLYHPSSSVLIPALRTVGNIVTGDDMQTQVIIQHQALPCLLNLLTNNHKKSIKKEACWTISNITAGNSEQIQAVIEAGIIGPLVQLLGTAEFEIKKEAAWAVSNATSGGTHEQLKYISLHFLSCPLVQLLGTAEFEIKKEAAWAVSNATSGGTHEQLKFLVSQGCIKPLCDLLNCPDPRIVTVALEGLENILKVGEAEKNLGHTGDVNVYAQLIDEAEGLEKIENLQSHDNNEIYEKSVKLLETYWLEDDDEQLPGGDTAQSELKFAGNG-PSVPSGGFSFS 573
MSLRPNARTEVRRSKYKVAVDA+EGRRRREDNMVEIRKN+REE+L KKRREG+Q Q + QIE++LESLPAM+AGV+S+D SL+LEAT+ FRKLLSIERNPPIEEVI+SGVVPRFVEFL RDDYP LQFEAAWALTNIASGTS++TKVVIDHGA+P+F+RLL S SDDVREQAVWALGN+AGDSPKCRDLVL GALMPLLAQFNEHAK+SMLRNATWTLSNFCRGKPQP FEQTKPALPALA+LI SNDEEVLTDACWA SYLSDGTNDKIQAVI++GVC RLVELL HPS SVLIPALRTVGNIVTGDD+QTQVII HQALP L+NLLTNN+KKSIKKEACWTISNITAGN QIQAVIEAGI+ PLVQLL AEFEIKKEAAWA+SNATSGGT+EQ+K+ LVSQGCIKPLCDLL CPDPRIVTV LEGLENILKVGEAEKNLG++GDVN YAQLIDEAEGLEKIENLQSHDNNEIYEK+VK+LETYWLED+DEQLP GD +QS +F GN P+VPSGGF+FS
Sbjct: 1 MSLRPNARTEVRRSKYKVAVDAEEGRRRREDNMVEIRKNKREESLLKKRREGLQTQQFPT-AVNVSQIEKKLESLPAMIAGVWSDDSSLQLEATTQFRKLLSIERNPPIEEVIQSGVVPRFVEFLARDDYPNLQFEAAWALTNIASGTSENTKVVIDHGAVPIFVRLLGSPSDDVREQAVWALGNIAGDSPKCRDLVLTCGALMPLLAQFNEHAKLSMLRNATWTLSNFCRGKPQPQFEQTKPALPALARLIHSNDEEVLTDACWALSYLSDGTNDKIQAVIEAGVCPRLVELLRHPSPSVLIPALRTVGNIVTGDDIQTQVIIDHQALPFLVNLLTNNYKKSIKKEACWTISNITAGNKGQIQAVIEAGIMAPLVQLLQNAEFEIKKEAAWAISNATSGGTNEQIKF-------------------------------------------LVSQGCIKPLCDLLVCPDPRIVTVCLEGLENILKVGEAEKNLGNSGDVNYYAQLIDEAEGLEKIENLQSHDNNEIYEKAVKILETYWLEDEDEQLPAGDASQSGFRFGGNELPAVPSGGFNFS 530
BLAST of DCAR_012360 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5B7BD68 (Importin subunit alpha {ECO:0000256|PIRNR:PIRNR005673})
HSP 1 Score: 906.36 bits (2341), Expect = 0.000e+0
Identity = 447/573 (78.01%), Postives = 490/573 (85.51%), Query Frame = 0
Match: A0A5B7BD68 (Importin subunit alpha {ECO:0000256|PIRNR:PIRNR005673})
HSP 1 Score: 906.36 bits (2341), Expect = 0.000e+0
Identity = 447/573 (78.01%), Postives = 490/573 (85.51%), Query Frame = 0
Query: 1 MSLRPNARTEVRRSKYKVAVDADEGRRRREDNMVEIRKNRREENLQKKRREGVQAPQLENLSATAVQIEQRLESLPAMVAGVFSEDGSLRLEATSHFRKLLSIERNPPIEEVIKSGVVPRFVEFLGRDDYPQLQFEAAWALTNIASGTSDHTKVVIDHGAIPVFIRLLTSASDDVREQAVWALGNVAGDSPKCRDLVLAHGALMPLLAQFNEHAKISMLRNATWTLSNFCRGKPQPHFEQTKPALPALAKLITSNDEEVLTDACWAFSYLSDGTNDKIQAVIDSGVCGRLVELLYHPSSSVLIPALRTVGNIVTGDDMQTQVIIQHQALPCLLNLLTNNHKKSIKKEACWTISNITAGNSEQIQAVIEAGIIGPLVQLLGTAEFEIKKEAAWAVSNATSGGTHEQLKYISLHFLSCPLVQLLGTAEFEIKKEAAWAVSNATSGGTHEQLKFLVSQGCIKPLCDLLNCPDPRIVTVALEGLENILKVGEAEKNLGHTGDVNVYAQLIDEAEGLEKIENLQSHDNNEIYEKSVKLLETYWLEDDDEQLPGGDTAQSELKFAGNGPSVPSGGFSFS 573
MSLRPNARTEVRRS+YKVAVDA+EGRRRREDNMVEIRKN+REE+L KKRREG+QA Q S Q++++LESLPAMVAGV+S+D +L+LEAT+ FRKLLSIERNPPIEEVI+SGVVPRFV+FL RDDYP+LQFEAAWALTNIASGTS++T VVIDHGA+P+F+RLL S SDDVREQAVWALGNVAGDSPKCRDLVL HGAL+PLLAQFNEHAK+SMLRNATWTLSNFCRGKPQP FEQTKPALPALA+LI SNDEEVLTDACWA SYLSDGTNDKIQAVI++GVC RLVELL HPS SVLIPALRTVGNIVTGDD+QTQVII+HQALPCLLNLL +N+KKSIKKEACWTISNITAGN +QIQAVIEAGII PLVQLL AEFEIKKEAAWA+SNATSGGT+EQ+K FLV QGCIKPLCDLL CPDPRIVTV LEGLENILKVGE EKNLG+TGDVN+YAQLIDEAEGLEKIENLQSHDNNEIYEK+VK+LETYWLED+DEQLP GDT+QS F G+ VPSGGF+FS
Sbjct: 1 MSLRPNARTEVRRSRYKVAVDAEEGRRRREDNMVEIRKNKREESLLKKRREGLQAQQFPT-SNNVSQLDKKLESLPAMVAGVWSDDSNLQLEATTQFRKLLSIERNPPIEEVIQSGVVPRFVKFLARDDYPKLQFEAAWALTNIASGTSENTNVVIDHGAVPIFVRLLGSPSDDVREQAVWALGNVAGDSPKCRDLVLNHGALIPLLAQFNEHAKLSMLRNATWTLSNFCRGKPQPQFEQTKPALPALARLIHSNDEEVLTDACWALSYLSDGTNDKIQAVIEAGVCPRLVELLLHPSPSVLIPALRTVGNIVTGDDIQTQVIIEHQALPCLLNLLIHNYKKSIKKEACWTISNITAGNRDQIQAVIEAGIIAPLVQLLQNAEFEIKKEAAWAISNATSGGTNEQIK-------------------------------------------FLVGQGCIKPLCDLLVCPDPRIVTVCLEGLENILKVGEVEKNLGNTGDVNLYAQLIDEAEGLEKIENLQSHDNNEIYEKAVKILETYWLEDEDEQLPPGDTSQSGFHFGGSELPVPSGGFNFS 529
BLAST of DCAR_012360 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5J5BJS2 (Importin subunit alpha {ECO:0000256|PIRNR:PIRNR005673})
HSP 1 Score: 902.123 bits (2330), Expect = 0.000e+0
Identity = 444/573 (77.49%), Postives = 489/573 (85.34%), Query Frame = 0
Match: A0A5J5BJS2 (Importin subunit alpha {ECO:0000256|PIRNR:PIRNR005673})
HSP 1 Score: 902.123 bits (2330), Expect = 0.000e+0
Identity = 444/573 (77.49%), Postives = 489/573 (85.34%), Query Frame = 0
Query: 1 MSLRPNARTEVRRSKYKVAVDADEGRRRREDNMVEIRKNRREENLQKKRREGVQAPQLENLSATAVQIEQRLESLPAMVAGVFSEDGSLRLEATSHFRKLLSIERNPPIEEVIKSGVVPRFVEFLGRDDYPQLQFEAAWALTNIASGTSDHTKVVIDHGAIPVFIRLLTSASDDVREQAVWALGNVAGDSPKCRDLVLAHGALMPLLAQFNEHAKISMLRNATWTLSNFCRGKPQPHFEQTKPALPALAKLITSNDEEVLTDACWAFSYLSDGTNDKIQAVIDSGVCGRLVELLYHPSSSVLIPALRTVGNIVTGDDMQTQVIIQHQALPCLLNLLTNNHKKSIKKEACWTISNITAGNSEQIQAVIEAGIIGPLVQLLGTAEFEIKKEAAWAVSNATSGGTHEQLKYISLHFLSCPLVQLLGTAEFEIKKEAAWAVSNATSGGTHEQLKFLVSQGCIKPLCDLLNCPDPRIVTVALEGLENILKVGEAEKNLGHTGDVNVYAQLIDEAEGLEKIENLQSHDNNEIYEKSVKLLETYWLEDDDEQLPGGDTAQSELKFAGNGPSVPSGGFSFS 573
MSLRP ARTEVRRS+YKVAVDA+EGRRRREDNMVEIRKN+REE+L KKRREG+Q Q S Q++++LESLPAMVAGV+S++ +L+LEAT+ FRKLLSIERNPPIEEVI+SGVVPRFVEFL RD+YP+LQFEAAWALTNIASGTS++TKVVIDHGA+P+F+RLL S SDDVREQAVWALGN+AGDSPKCRDLVL HGAL+PLLAQFNEHAK+SMLRNATWTLSNFCRGKPQP FE TKPALPALA+LI SNDEEVLTDACWA SYLSDGTNDKIQAVI++GVC RLVELL HPS SVLIPALRTVGNIVTGDD+QTQVII+HQALPCLLNLLT+N+KKSIKKEACWTISNITAGN +QIQAVIEAGII PLVQLL AEFEIKKEAAWA+SNATSGGTHEQ+K FLV QGCIKPLCDLL CPDPRIVTV LEGLENILKVGE EKNLG+TGDVN+YAQLIDEAEGLEKIENLQSHDNNEIYEK+VK+LETYWLED+D+QLP GDT+QS F G+ VPSGGF+FS
Sbjct: 1 MSLRPTARTEVRRSRYKVAVDAEEGRRRREDNMVEIRKNKREESLLKKRREGLQTQQFPT-SINVSQVDRKLESLPAMVAGVWSDESNLQLEATTQFRKLLSIERNPPIEEVIQSGVVPRFVEFLARDNYPKLQFEAAWALTNIASGTSENTKVVIDHGAVPIFVRLLGSPSDDVREQAVWALGNIAGDSPKCRDLVLNHGALVPLLAQFNEHAKLSMLRNATWTLSNFCRGKPQPQFELTKPALPALARLIHSNDEEVLTDACWALSYLSDGTNDKIQAVIEAGVCPRLVELLLHPSPSVLIPALRTVGNIVTGDDIQTQVIIEHQALPCLLNLLTHNYKKSIKKEACWTISNITAGNRDQIQAVIEAGIIVPLVQLLQNAEFEIKKEAAWAISNATSGGTHEQIK-------------------------------------------FLVGQGCIKPLCDLLVCPDPRIVTVCLEGLENILKVGEVEKNLGNTGDVNLYAQLIDEAEGLEKIENLQSHDNNEIYEKAVKILETYWLEDEDDQLPPGDTSQSGFNFGGSELPVPSGGFNFS 529
BLAST of DCAR_012360 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A4S4EZ26 (Importin subunit alpha {ECO:0000256|PIRNR:PIRNR005673})
HSP 1 Score: 900.582 bits (2326), Expect = 0.000e+0
Identity = 442/574 (77.00%), Postives = 487/574 (84.84%), Query Frame = 0
Match: A0A4S4EZ26 (Importin subunit alpha {ECO:0000256|PIRNR:PIRNR005673})
HSP 1 Score: 900.582 bits (2326), Expect = 0.000e+0
Identity = 442/574 (77.00%), Postives = 487/574 (84.84%), Query Frame = 0
Query: 1 MSLRPNARTEVRRSKYKVAVDADEGRRRREDNMVEIRKNRREENLQKKRREGVQAPQLENLSATAVQIEQRLESLPAMVAGVFSEDGSLRLEATSHFRKLLSIERNPPIEEVIKSGVVPRFVEFLGRDDYPQLQFEAAWALTNIASGTSDHTKVVIDHGAIPVFIRLLTSASDDVREQAVWALGNVAGDSPKCRDLVLAHGALMPLLAQFNEHAKISMLRNATWTLSNFCRGKPQPHFEQTKPALPALAKLITSNDEEVLTDACWAFSYLSDGTNDKIQAVIDSGVCGRLVELLYHPSSSVLIPALRTVGNIVTGDDMQTQVIIQHQALPCLLNLLTN-NHKKSIKKEACWTISNITAGNSEQIQAVIEAGIIGPLVQLLGTAEFEIKKEAAWAVSNATSGGTHEQLKYISLHFLSCPLVQLLGTAEFEIKKEAAWAVSNATSGGTHEQLKFLVSQGCIKPLCDLLNCPDPRIVTVALEGLENILKVGEAEKNLGHTGDVNVYAQLIDEAEGLEKIENLQSHDNNEIYEKSVKLLETYWLEDDDEQLPGGDTAQSELKFAGNGPSVPSGGFSFS 573
MSLRP+ARTEVRRSKYKVAVDA+EGRRRREDNMVEIRKN+REE+L KKRREG+QA Q + + QI+++LESLP M+AGV+SED SL+LEAT+ FRKLLSIERNPPIEEVI+SGVVPRFVEFL RDDYPQLQFEAAWALTNIASGTS++TKVVIDHGA+P+F+RLL S SDDVREQAVWALGN+AGDSPKCRDLVL HGALMPLLAQFNEHAK+SMLRNATWTLSNFCRGKPQP FEQTKPALPALA+LI SNDEEVLTDACWA SYLSDGTNDKIQAVI++ VC RLVELL HPS SVLIPALRTVGNIVTGDD+QTQVI+ HQALPC+LNLLT+ N+KKS+KKEACWTISNITAGN +QIQAVIEAGI+ PL QLL AEFEIKKEAAWA+SNATSGGTHEQ+K FLV QGCIKPLCDLL CPDPRIVTV LEGLENILKVGE EKNLG++ +VN+YAQ IDEAEGLEKIENLQSHDNNEIYEK+VK+LETYWLED+DEQLP D +QS +F GN P VPSGGF+FS
Sbjct: 1 MSLRPSARTEVRRSKYKVAVDAEEGRRRREDNMVEIRKNKREESLLKKRREGLQAHQFPS-TINVSQIDKKLESLPGMIAGVWSEDSSLQLEATTQFRKLLSIERNPPIEEVIQSGVVPRFVEFLARDDYPQLQFEAAWALTNIASGTSENTKVVIDHGAVPIFVRLLGSPSDDVREQAVWALGNIAGDSPKCRDLVLNHGALMPLLAQFNEHAKLSMLRNATWTLSNFCRGKPQPQFEQTKPALPALARLIHSNDEEVLTDACWALSYLSDGTNDKIQAVIEAVVCPRLVELLLHPSPSVLIPALRTVGNIVTGDDIQTQVILDHQALPCMLNLLTHKNYKKSVKKEACWTISNITAGNRDQIQAVIEAGIVAPLAQLLQNAEFEIKKEAAWAISNATSGGTHEQIK-------------------------------------------FLVDQGCIKPLCDLLVCPDPRIVTVCLEGLENILKVGEVEKNLGNSSNVNLYAQFIDEAEGLEKIENLQSHDNNEIYEKAVKILETYWLEDEDEQLPPADASQSGFQFGGNEPPVPSGGFNFS 530
BLAST of DCAR_012360 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A7J7GAX6 (Importin subunit alpha {ECO:0000256|PIRNR:PIRNR005673})
HSP 1 Score: 900.582 bits (2326), Expect = 0.000e+0
Identity = 444/582 (76.29%), Postives = 487/582 (83.68%), Query Frame = 0
Match: A0A7J7GAX6 (Importin subunit alpha {ECO:0000256|PIRNR:PIRNR005673})
HSP 1 Score: 900.582 bits (2326), Expect = 0.000e+0
Identity = 444/582 (76.29%), Postives = 487/582 (83.68%), Query Frame = 0
Query: 1 MSLRPNARTEVRRSKYKVAVDADEGRRRREDNMVEIRKNRREENLQKKRREGVQAPQLENLSATAVQIEQRLESLPAMVAGVFSEDGSLRLEATSHFRKLLSIERNPPIEEVIKSGVVPRFVEFLGRDDYPQLQFEAAWALTNIASGTSDHTKVVIDHGAIPVFIRLLTSASDDVREQAVWALGNVAGDSPKCRDLVLAHGALMPLLAQFNEHAKISMLRNATWTLSNFCRGKPQPHFEQ---------TKPALPALAKLITSNDEEVLTDACWAFSYLSDGTNDKIQAVIDSGVCGRLVELLYHPSSSVLIPALRTVGNIVTGDDMQTQVIIQHQALPCLLNLLTNNHKKSIKKEACWTISNITAGNSEQIQAVIEAGIIGPLVQLLGTAEFEIKKEAAWAVSNATSGGTHEQLKYISLHFLSCPLVQLLGTAEFEIKKEAAWAVSNATSGGTHEQLKFLVSQGCIKPLCDLLNCPDPRIVTVALEGLENILKVGEAEKNLGHTGDVNVYAQLIDEAEGLEKIENLQSHDNNEIYEKSVKLLETYWLEDDDEQLPGGDTAQSELKFAGNGPSVPSGGFSFS 573
MSLRP+ARTEVRRSKYKVAVDA+EGRRRREDNMVEIRKN+REE+L KKRREG+QA Q + + QI+++LESLP M+AGV+SED SL+LEAT+ FRKLLSIERNPPIEEVI+SGVVPRFVEFL RDDYPQLQFEAAWALTNIASGTS++TKVVIDHGA+P+F+RLL S SDDVREQAVWALGN+AGDSPKCRDLVL HGALMPLLAQFNEHAK+SMLRNATWTLSNFCRGKPQP FEQ TKPALPALA+LI SNDEEVLTDACWA SYLSDGTNDKIQAVI++ VC RLVELL HPS SVLIPALRTVGNIVTGDD+QTQVI+ HQALPCLLNLLT N+KKS+KKEACWTISNITAGN +QIQAVIEAGI+ PLVQLL AEFEIKKEAAWA+SNATSGGTHEQ+K FLV QGCIKPLCDLL CPDPRIVTV LEGLENILKVGE EKNLG++ +VN+YAQ IDEAEGLEKIENLQSHDNNEIYEK+VK+LETYWLED+DEQLP D +QS +F GN P VPSGGF+FS
Sbjct: 1 MSLRPSARTEVRRSKYKVAVDAEEGRRRREDNMVEIRKNKREESLLKKRREGLQAHQFPS-TINVSQIDKKLESLPGMIAGVWSEDSSLQLEATTQFRKLLSIERNPPIEEVIQSGVVPRFVEFLARDDYPQLQFEAAWALTNIASGTSENTKVVIDHGAVPIFVRLLGSPSDDVREQAVWALGNIAGDSPKCRDLVLNHGALMPLLAQFNEHAKLSMLRNATWTLSNFCRGKPQPQFEQVRLLKDTIGTKPALPALARLIHSNDEEVLTDACWALSYLSDGTNDKIQAVIEAVVCPRLVELLLHPSPSVLIPALRTVGNIVTGDDIQTQVILDHQALPCLLNLLTQNYKKSVKKEACWTISNITAGNRDQIQAVIEAGIVAPLVQLLQNAEFEIKKEAAWAISNATSGGTHEQIK-------------------------------------------FLVDQGCIKPLCDLLVCPDPRIVTVCLEGLENILKVGEVEKNLGNSSNVNLYAQFIDEAEGLEKIENLQSHDNNEIYEKAVKILETYWLEDEDEQLPPADASQSGFQFGGNEPPVPSGGFNFS 538
BLAST of DCAR_012360 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A2R6QUB1 (Importin subunit alpha {ECO:0000256|PIRNR:PIRNR005673})
HSP 1 Score: 892.108 bits (2304), Expect = 0.000e+0
Identity = 440/573 (76.79%), Postives = 485/573 (84.64%), Query Frame = 0
Match: A0A2R6QUB1 (Importin subunit alpha {ECO:0000256|PIRNR:PIRNR005673})
HSP 1 Score: 892.108 bits (2304), Expect = 0.000e+0
Identity = 440/573 (76.79%), Postives = 485/573 (84.64%), Query Frame = 0
Query: 1 MSLRPNARTEVRRSKYKVAVDADEGRRRREDNMVEIRKNRREENLQKKRREGVQAPQLENLSATAVQIEQRLESLPAMVAGVFSEDGSLRLEATSHFRKLLSIERNPPIEEVIKSGVVPRFVEFLGRDDYPQLQFEAAWALTNIASGTSDHTKVVIDHGAIPVFIRLLTSASDDVREQAVWALGNVAGDSPKCRDLVLAHGALMPLLAQFNEHAKISMLRNATWTLSNFCRGKPQPHFEQTKPALPALAKLITSNDEEVLTDACWAFSYLSDGTNDKIQAVIDSGVCGRLVELLYHPSSSVLIPALRTVGNIVTGDDMQTQVIIQHQALPCLLNLLTNNHKKSIKKEACWTISNITAGNSEQIQAVIEAGIIGPLVQLLGTAEFEIKKEAAWAVSNATSGGTHEQLKYISLHFLSCPLVQLLGTAEFEIKKEAAWAVSNATSGGTHEQLKFLVSQGCIKPLCDLLNCPDPRIVTVALEGLENILKVGEAEKNLGHTGDVNVYAQLIDEAEGLEKIENLQSHDNNEIYEKSVKLLETYWLEDDDEQLPGGDTAQSELKFAGNGPSVPSGGFSFS 573
MSLRPNARTEVRRS+YKVAVDA+EGRRRREDNMVEIRKNRREE+L KKRREG+QA QL + QIE++LESLPAMVAGV+ ED SL+LEAT+ FRKLLSIERNPPIEEVI+SGVVPRFVEFL RDDYPQLQFEAAWALTNIASGT+++TK V+DHGA+P+F+RLL SASDDVREQAVWALGN+AGDSPKCRDLVL HGALMPLL+QFNEH K+SMLRNATWTLSNFCRGKPQP FEQTKPALPALA+LI SNDEEVLTDACWA SYLSDGTNDKIQAVI++ VC RLVELL HPS SVLIPALRT+GNIVTGDD+QTQVII HQALPCLLN LT+N+KKSIKKEACWTISNITAGN +QIQAV +AGII PLVQLL AEF+IKKEAAWA+SNATSGGTHEQ+K+ LVSQGCIKPLCDLL CPDPRIVTV LEGLENILKVGE KN G TG+VN YAQLI+EAEGLEKIENLQSHDNNEIYEK+VK+LETYWLE+++EQLP GDT+QS +F GN +PSGGF+FS
Sbjct: 1 MSLRPNARTEVRRSRYKVAVDAEEGRRRREDNMVEIRKNRREESLLKKRREGLQAQQLPT-TVNVSQIEKKLESLPAMVAGVWLEDSSLQLEATTQFRKLLSIERNPPIEEVIQSGVVPRFVEFLARDDYPQLQFEAAWALTNIASGTAENTKAVLDHGAVPIFVRLLGSASDDVREQAVWALGNIAGDSPKCRDLVLNHGALMPLLSQFNEHTKLSMLRNATWTLSNFCRGKPQPQFEQTKPALPALARLIHSNDEEVLTDACWALSYLSDGTNDKIQAVIEAAVCPRLVELLLHPSPSVLIPALRTIGNIVTGDDIQTQVIIDHQALPCLLNFLTHNYKKSIKKEACWTISNITAGNRDQIQAVFDAGIIAPLVQLLQNAEFDIKKEAAWAISNATSGGTHEQIKF-------------------------------------------LVSQGCIKPLCDLLICPDPRIVTVCLEGLENILKVGEVGKNSGETGNVNFYAQLIEEAEGLEKIENLQSHDNNEIYEKAVKILETYWLEEEEEQLPSGDTSQSGFQFGGNELPLPSGGFNFS 529
BLAST of DCAR_012360 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A1Q3AN68 (Importin subunit alpha {ECO:0000256|PIRNR:PIRNR005673})
HSP 1 Score: 890.952 bits (2301), Expect = 0.000e+0
Identity = 434/574 (75.61%), Postives = 490/574 (85.37%), Query Frame = 0
Match: A0A1Q3AN68 (Importin subunit alpha {ECO:0000256|PIRNR:PIRNR005673})
HSP 1 Score: 890.952 bits (2301), Expect = 0.000e+0
Identity = 434/574 (75.61%), Postives = 490/574 (85.37%), Query Frame = 0
Query: 1 MSLRPNARTEVRRSKYKVAVDADEGRRRREDNMVEIRKNRREENLQKKRREGVQAPQLENLSATAVQIEQRLESLPAMVAGVFSEDGSLRLEATSHFRKLLSIERNPPIEEVIKSGVVPRFVEFLGRDDYPQLQFEAAWALTNIASGTSDHTKVVIDHGAIPVFIRLLTSASDDVREQAVWALGNVAGDSPKCRDLVLAHGALMPLLAQFNEHAKISMLRNATWTLSNFCRGKPQPHFEQTKPALPALAKLITSNDEEVLTDACWAFSYLSDGTNDKIQAVIDSGVCGRLVELLYHPSSSVLIPALRTVGNIVTGDDMQTQVIIQHQALPCLLNLLTNNHKKSIKKEACWTISNITAGNSEQIQAVIEAGIIGPLVQLLGTAEFEIKKEAAWAVSNATSGGTHEQLKYISLHFLSCPLVQLLGTAEFEIKKEAAWAVSNATSGGTHEQLKFLVSQGCIKPLCDLLNCPDPRIVTVALEGLENILKVGEAEKNLGHTGDVNVYAQLIDEAEGLEKIENLQSHDNNEIYEKSVKLLETYWLED-DDEQLPGGDTAQSELKFAGNGPSVPSGGFSFS 573
MSLRP+ARTEVRR+ YKVAVDA+EGRRRREDNMVEIRKN+REE+LQKKRREG+Q QL + + + E++LESLPA+VA V+S+DG+ +LEAT+HFRKLLSIER+PPI EV+++GVVPR VEFL RDD+PQLQFEAAWALTNIASGTS++T+VVIDHGA+P+F++LL+S +DDVREQAVWALGNVAGDSPKCRDLVL HGALMPLLAQFNEHAK+SMLRNATWTLSNFCRGKPQP+FEQTKPALPAL +LI SNDEEVLTDACWA SYLSDGTNDKIQAVI++GVC RLVELL HPS +VLIPALRTVGNIVTGDDMQTQ +I HQ LPCL+NLLTNN+KKSIKKEACWTISNITAGN +QIQAV+ AGII PLVQLL AEFEIKKEAAWA+SNATSGGTHEQ+K+ LVSQGCIKPLCDLLNCPDPRIVTV LEGLENILKVGEAEKNLG+TGDVN+YAQLID+AEGLEKIENLQSHDNNEIYEK+VK+LETYW+ED DDE LP GD++QS +F G+ VPSGGF+FS
Sbjct: 1 MSLRPSARTEVRRNSYKVAVDAEEGRRRREDNMVEIRKNKREESLQKKRREGLQ--QLPSTVTSTLASEKKLESLPALVASVWSDDGNAQLEATTHFRKLLSIERSPPINEVVQAGVVPRLVEFLARDDFPQLQFEAAWALTNIASGTSENTRVVIDHGAVPIFVKLLSSPTDDVREQAVWALGNVAGDSPKCRDLVLGHGALMPLLAQFNEHAKLSMLRNATWTLSNFCRGKPQPNFEQTKPALPALERLIHSNDEEVLTDACWALSYLSDGTNDKIQAVIEAGVCPRLVELLLHPSPTVLIPALRTVGNIVTGDDMQTQCMINHQVLPCLVNLLTNNYKKSIKKEACWTISNITAGNGDQIQAVVGAGIIAPLVQLLQNAEFEIKKEAAWAISNATSGGTHEQIKF-------------------------------------------LVSQGCIKPLCDLLNCPDPRIVTVCLEGLENILKVGEAEKNLGNTGDVNLYAQLIDDAEGLEKIENLQSHDNNEIYEKAVKILETYWVEDEDDEPLPPGDSSQSGFRFGGSELPVPSGGFNFS 529
BLAST of DCAR_012360 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A7J9LSV6 (Importin subunit alpha {ECO:0000256|PIRNR:PIRNR005673})
HSP 1 Score: 890.567 bits (2300), Expect = 0.000e+0
Identity = 438/577 (75.91%), Postives = 487/577 (84.40%), Query Frame = 0
Match: A0A7J9LSV6 (Importin subunit alpha {ECO:0000256|PIRNR:PIRNR005673})
HSP 1 Score: 890.567 bits (2300), Expect = 0.000e+0
Identity = 438/577 (75.91%), Postives = 487/577 (84.40%), Query Frame = 0
Query: 1 MSLRPNARTEVRRSKYKVAVDADEGRRRREDNMVEIRKNRREENLQKKRREGVQAPQLEN----LSATAVQIEQRLESLPAMVAGVFSEDGSLRLEATSHFRKLLSIERNPPIEEVIKSGVVPRFVEFLGRDDYPQLQFEAAWALTNIASGTSDHTKVVIDHGAIPVFIRLLTSASDDVREQAVWALGNVAGDSPKCRDLVLAHGALMPLLAQFNEHAKISMLRNATWTLSNFCRGKPQPHFEQTKPALPALAKLITSNDEEVLTDACWAFSYLSDGTNDKIQAVIDSGVCGRLVELLYHPSSSVLIPALRTVGNIVTGDDMQTQVIIQHQALPCLLNLLTNNHKKSIKKEACWTISNITAGNSEQIQAVIEAGIIGPLVQLLGTAEFEIKKEAAWAVSNATSGGTHEQLKYISLHFLSCPLVQLLGTAEFEIKKEAAWAVSNATSGGTHEQLKFLVSQGCIKPLCDLLNCPDPRIVTVALEGLENILKVGEAEKNLGHTGDVNVYAQLIDEAEGLEKIENLQSHDNNEIYEKSVKLLETYWLEDDDEQLPGGDTAQSELKFAGNGPSVPSGGFSFS 573
MSLRP+ARTEVRR++YKVAVDA+EGRRRREDNMVEIRKN+REENL KKRREG+ A Q + + ++ V E +LESLPAMV GV+S+D + +LEAT+ FRKLLSIER+PPI EV+++GVVPRFVEFL RDD+PQLQFEAAWALTNIASGTSD+T+VVIDHGA+P+F++LL S +DDVREQAVWALGNVAGDSPKCRDLVL HGAL+PLLAQFNEHAK+SMLRNATWTLSNFCRGKPQP FEQTKPALPAL +LI SNDEEVLTDACWA SYLSDGTNDKIQAVI++GVC RL+ELL HPS +VLIPALRTVGNIVTGDDMQTQ II HQALPCLLNLLTN +KKSIKKEACWTISNITAGN +QIQAVIEAGII PLV LL AEFEIKKEAAWA+SNATSGGTHEQ+K+ LVSQGCIKPLCDLLNCPDPRIVTV LEGLENILKVGEAEKNLGHTGDVN+YAQLID+AEGLEKIENLQSHDNNEIYEK+VK+LETYW+ED+DE LP GD AQS L+F GN VPSGGF+F+
Sbjct: 1 MSLRPSARTEVRRNRYKVAVDAEEGRRRREDNMVEIRKNKREENLLKKRREGLLAQQPQPQQQQMLSSGVGSENKLESLPAMVVGVWSDDKNAQLEATTQFRKLLSIERSPPINEVVQAGVVPRFVEFLNRDDFPQLQFEAAWALTNIASGTSDNTRVVIDHGAVPIFVKLLGSPTDDVREQAVWALGNVAGDSPKCRDLVLGHGALVPLLAQFNEHAKLSMLRNATWTLSNFCRGKPQPSFEQTKPALPALERLINSNDEEVLTDACWALSYLSDGTNDKIQAVIEAGVCPRLIELLLHPSPTVLIPALRTVGNIVTGDDMQTQCIIGHQALPCLLNLLTNTYKKSIKKEACWTISNITAGNIDQIQAVIEAGIIAPLVHLLQNAEFEIKKEAAWAISNATSGGTHEQIKF-------------------------------------------LVSQGCIKPLCDLLNCPDPRIVTVCLEGLENILKVGEAEKNLGHTGDVNLYAQLIDDAEGLEKIENLQSHDNNEIYEKAVKILETYWVEDEDEPLPPGDAAQSGLQFGGNQLPVPSGGFNFN 534
BLAST of DCAR_012360 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A199VJV5 (Importin subunit alpha {ECO:0000256|PIRNR:PIRNR005673})
HSP 1 Score: 890.567 bits (2300), Expect = 0.000e+0
Identity = 437/573 (76.27%), Postives = 484/573 (84.47%), Query Frame = 0
Match: A0A199VJV5 (Importin subunit alpha {ECO:0000256|PIRNR:PIRNR005673})
HSP 1 Score: 890.567 bits (2300), Expect = 0.000e+0
Identity = 437/573 (76.27%), Postives = 484/573 (84.47%), Query Frame = 0
Query: 1 MSLRPNARTEVRRSKYKVAVDADEGRRRREDNMVEIRKNRREENLQKKRREGVQAPQLENLSATAVQIEQRLESLPAMVAGVFSEDGSLRLEATSHFRKLLSIERNPPIEEVIKSGVVPRFVEFLGRDDYPQLQFEAAWALTNIASGTSDHTKVVIDHGAIPVFIRLLTSASDDVREQAVWALGNVAGDSPKCRDLVLAHGALMPLLAQFNEHAKISMLRNATWTLSNFCRGKPQPHFEQTKPALPALAKLITSNDEEVLTDACWAFSYLSDGTNDKIQAVIDSGVCGRLVELLYHPSSSVLIPALRTVGNIVTGDDMQTQVIIQHQALPCLLNLLTNNHKKSIKKEACWTISNITAGNSEQIQAVIEAGIIGPLVQLLGTAEFEIKKEAAWAVSNATSGGTHEQLKYISLHFLSCPLVQLLGTAEFEIKKEAAWAVSNATSGGTHEQLKFLVSQGCIKPLCDLLNCPDPRIVTVALEGLENILKVGEAEKNLGHTGDVNVYAQLIDEAEGLEKIENLQSHDNNEIYEKSVKLLETYWLEDDDEQLPGGDTAQSELKFAGNGPSVPSGGFSFS 573
MSLRP+AR EVRR+KYKVAVDA+EGRRRREDNMVEIRKNRREENLQKKRREG+QA L S A +E++LESLPAMVAGV+S+D +L+LEAT+ FRKLLSIER+PPIEEVI+SGVVPRFV+FL R+D+PQLQFEAAWALTNIASGTS++TKVVIDHGA+P+F++LL S SDDVREQAVWALGNVAGDSP+CRDLVL +GALMPLLAQ NEHAK+SMLRNATWTLSNFCRGKPQP FEQTKPALPALA+LI SNDEEVLTDACWA SYLSDGTNDKIQAVI++GVC RLVELL HPS SVLIPALRTVGNIVTGDD+QTQ +I HQALPCLLNLL NHKKSIKKEACWTISNITAGN +QIQAVI AGIIGPLV LL TAEF+IKKEAAWA+SNATSGGTH+Q+KY LVSQGCIKPLCDLL CPDPRIVTV LEGLENILKVGEAEKNLG TG VN+YAQ+IDEAEGLEKIENLQSHDN EIYEKSVK+LETYWLE++DE +P GDT+++ G +VPSGGF+FS
Sbjct: 1 MSLRPSARAEVRRNKYKVAVDAEEGRRRREDNMVEIRKNRREENLQKKRREGMQAQALP-ASVPASAVEKKLESLPAMVAGVYSDDSNLQLEATTQFRKLLSIERSPPIEEVIQSGVVPRFVQFLTREDFPQLQFEAAWALTNIASGTSENTKVVIDHGAVPIFVKLLGSPSDDVREQAVWALGNVAGDSPRCRDLVLTNGALMPLLAQLNEHAKLSMLRNATWTLSNFCRGKPQPSFEQTKPALPALAQLIHSNDEEVLTDACWALSYLSDGTNDKIQAVIEAGVCPRLVELLLHPSPSVLIPALRTVGNIVTGDDVQTQCVIDHQALPCLLNLLAQNHKKSIKKEACWTISNITAGNKDQIQAVIAAGIIGPLVHLLQTAEFDIKKEAAWAISNATSGGTHDQIKY-------------------------------------------LVSQGCIKPLCDLLVCPDPRIVTVCLEGLENILKVGEAEKNLGATGGVNLYAQMIDEAEGLEKIENLQSHDNTEIYEKSVKILETYWLEEEDEAMPPGDTSETMFGSTGQQFNVPSGGFNFS 529
| Match Name | Stats | Description |
|---|---|---|
| A0A6L5BEL7 | E-Value: 0.000e+0, PID: 79.72 | Importin subunit alpha {ECO:0000256|PIRNR:PIRNR005... [more] |
| A0A834L6D4 | E-Value: 0.000e+0, PID: 78.22 | (Uncharacterized protein {ECO:0000313|EMBL:KAF7119... [more] |
| A0A5B7BD68 | E-Value: 0.000e+0, PID: 78.01 | Importin subunit alpha {ECO:0000256|PIRNR:PIRNR005... [more] |
| A0A5J5BJS2 | E-Value: 0.000e+0, PID: 77.49 | Importin subunit alpha {ECO:0000256|PIRNR:PIRNR005... [more] |
| A0A4S4EZ26 | E-Value: 0.000e+0, PID: 77.00 | Importin subunit alpha {ECO:0000256|PIRNR:PIRNR005... [more] |
| A0A7J7GAX6 | E-Value: 0.000e+0, PID: 76.29 | Importin subunit alpha {ECO:0000256|PIRNR:PIRNR005... [more] |
| A0A2R6QUB1 | E-Value: 0.000e+0, PID: 76.79 | Importin subunit alpha {ECO:0000256|PIRNR:PIRNR005... [more] |
| A0A1Q3AN68 | E-Value: 0.000e+0, PID: 75.61 | Importin subunit alpha {ECO:0000256|PIRNR:PIRNR005... [more] |
| A0A7J9LSV6 | E-Value: 0.000e+0, PID: 75.91 | Importin subunit alpha {ECO:0000256|PIRNR:PIRNR005... [more] |
| A0A199VJV5 | E-Value: 0.000e+0, PID: 76.27 | Importin subunit alpha {ECO:0000256|PIRNR:PIRNR005... [more] |
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back to topAnalysis:
| Name | Description |
|---|---|
An orange, doubled-haploid, Nantes-type carrot (DH1) was used for genome sequencing. We used BAC end sequences and a newly developed linkage map with 2,075 markers to correct 135 scaffolds with one or more chimeric regions. The resulting v2.0 assembly spans 421.5 Mb and contains 4,907 scaffolds (N50 of 12.7 Mb), accounting for ∼90% of the estimated genome size of 473 Mb. The scaftig N50 of 31.2 kb is similar to those of other high-quality genome assemblies such as potato and pepper. About 86% (362 Mb) of the assembled genome is included in only 60 superscaffolds anchored to the nine pseudomolecules. The longest superscaffold spans 30.2 Mb, 85% of chromosome 4. There are a few different naming schemes for this assembly. First there is the Phytozome genome ID 388: The authors' sequences and gene predictions were also submitted to Phytozome, and can be accessed at this address: https://phytozome-next.jgi.doe.gov/info/Dcarota_v2_0 LNRQ01: These sequences were then assigned GenBank accession numbers starting at LNRQ01000001.1 which corresponds to DCARv2_Chr1, up to LNRQ01004826.1 which corresponds to an unincorporated contig, DCARv2_C10750146. These reside in bioproject PRJNA268187, which is a subproject of umbrella project PRJNA285926. Assembly GCA_001625215.1: The genome assembly was later defined an accession number GCA_001625215.1 for assembly ASM162521v1 which consists of only the 9 chromosome sequences and the plastid assembly, which have accession numbers from CM004278.1 to CM004286.1 for the chromosomes and CM004358.1 for the plastid. The mitochondrial genome was not included because it is classified as an incomplete sequence. RefSeq: The assembly was then later added to RefSeq, and there another new set of identifiers was defined from NC_030381.1 to NC_030389.1 for the chromosomes, and from NW_016089425.1 to NW_016094239.1 for unincorporated scaffolds and contigs. These reside in bioproject PRJNA326436. Note that NCBI substituted different assembled organellar genomes from different genotypes for the RefSeq records. The NCBI Sequence report lists the correspondences between the various naming methods Link to the LNRQ01000000.1 master record at NCBI Raw Reads: Link to SRA accessions used for the genome assembly This genome is available in the CarrotOmics Blast Search | |
This analysis is a blastp search of all of the DCAR V1.0 Gene Prediction polypeptide sequences against combined ExPASy SwissProt and TrEMBL databases from Nov. 17, 2021. Prior to performing the blast search, the database was filtered to remove organisms not in the Viridiplantae, and also filtered to remove these same DCAR gene predictions. | |
For gene model prediction, mobile element–related repeats were masked using RepeatMasker. De novo prediction using AUGUSTUS v2.5.5, GENSCAN v.1.1.0, and GlimmerHMM-3.0.1 was trained using model species A. thaliana and S. lycoperisum training sets. The protein sequences of S. lycoperisum, Solanum tuberosum, A. thaliana, Brassica rapa, and Oryza sativa were mapped to the carrot genome using TBLASTN (BLAST All 2.2.23) and analyzed with GeneWise version 2.2.0. Carrot ESTs were aligned to the genome using BLAT and analyzed with PASA to detect spliced gene models. RNA-seq reads from 20 DH1 libraries were aligned with TopHat 2.0.9. Transcripts were predicted by Cufflinks. All gene models produced by de novo prediction, protein homology searches, and prediction and transcript-based evidence were integrated using GLEAN v1.1. Putative gene functions were assigned using the best BLASTP match to SwissProt and TrEMBL databases. Gene motifs and domains were determined with InterProScan version 4.7 against the ProDom, PRINTS, Pfam, SMART, PANTHER, and PROSITE protein databases. GO IDs for each gene were obtained from the corresponding InterPro entries. All genes were aligned against KEGG (release 58) proteins. Data from this analysis can be viewed in JBrowse here. |