DCAR_019194

Resource Type: 
Polypeptide
Name: 
DCAR_019194
Identifier: 
DCAR_019194.mRNA-protein
Sequence: 
MGGFVNDPSFKVKLEDNKEAVLESSEVNKSIDSLGALYIPEIDDLSLSLA
DSFLDFDCLKDYIEENQEPFMAGVKQELGMVGGEVLDSGVVGESLEMGQD
GSFGGVGVEDGFREVGSDVGRDGFQEVVGKSFEVGREDSCRETNGEDGVG
KFGSLIEEEMGKVSLDESGGNGVGEGLGDIEKVVMCEMEDGLEGLERSDK
LVGVEGSELERGEMGNVECGGEKSCEIDGAEGGGIEKPCFNGKLGDSGNT
LTIDGVGTKIGGNMSDEDDSESESESETSGSSSSSSSSSSSSSEDDDEDD
DDVKEIVGTQVIVEGVEKHDPLNEGSILWITEKRSPLGIVDEIFGPVKNP
YYIVRYNSENEVPVGIQQGTSVSFVPEFVNHILNNGNLYKKGYDASGEND
EEISEEAEFSDDEKEAEYKRLQKMSKRGPKDQTLENRKRNKNKSKRRGGQ
WGGDQHSSAKEPNERVVQAPSIQNQHFRPPLSVNQGNSSNSMRPVQAFAG
GPGLVPVFPQAPQVPGFVAPSSGVWMNGIPCQPPQSTFSNGPTPNNMLQL
QQNQAQQPYHMPPFNGMPLQQFSTGQMMPPNFVFPGGHPGFSMGAFTPMN
QMMFSQNNFGQLQAGASQNNFSQLHVAAAQNNFNHSQAAMNMQQQHAINM
QGQLPMNFGQSNAAVGMQGQHAPSIVNNGDQGVLPKENQNEQNGSSQPLP
ATPPSTGGPQNFSSGVKFGRGRNSYQRGGGRFGGRGGRGRGRGRQQPR*
Sequence Length: 
749
Sequence Checksum: 
e3b84fd465f0fa42616eafdc5d6858f4
View location in JBrowse: 
DCARv2_Chr5:37005559..37009475+
Organism: 
Daucus carota subspecies sativus
Relationship: 
There is 1 relationship.
Relationships
The polypeptide, DCAR_019194, derives from mRNA, DCAR_019194.
Blast Results: 
The following BLAST results are available for this feature:
BLAST of DCAR_019194 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
[Close]
BLAST of DCAR_019194 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5B7BRW9 (H/ACA ribonucleoprotein complex non-core subunit NAF1 {ECO:0000256|ARBA:ARBA00021438})

HSP 1 Score: 352.829 bits (904), Expect = 5.255e-108
Identity = 211/428 (49.30%), Postives = 260/428 (60.75%), Query Frame = 0
 
Query:  303 VKEIVGTQVIVEGVEKHDPLNEGSILWITEKRSPLGIVDEIFGPVKNPYYIVRYNSENEVPVGIQQGTSVSFVPEFVNHILNNGNLYKKGYDASGENDEEISEEAEFSDDEKEAEYKRLQKMSKRGPKDQTLENRKRNKNKSKRRGGQWGGDQHSSAKEPNERVVQAPSIQNQHFRPP---LSVNQGNSSNSMRPVQAFAGGPGLVPVFPQAPQVPGFVAPSSGVWMNGIPCQPPQST-FSNGPTPNNMLQLQQNQAQQPYHMPPFNGMPL-QQFSTGQMMPPNFVFPGGHPGFSMGAFTPMNQMMFSQNNFGQLQAGASQNNFSQLHVAAAQNNFNHSQAAMNMQQQHAINMQGQLPMNFGQSNAAVGMQGQHAPSIVNNGDQGVLPKENQNEQNGSSQPLPATPPSTGGPQNFSSGVKFGRGRNSY 725
            V  I+G+QVIVEGVEKH+PLNEGSILWITE+RSPLG+VDEIFGPVKNPYY+VRYNS+N+VP GI QGT VSFVPEFVNH+LN+ NLYKKGYDASG+NDE +S+E EFSDDEKEAEY+R+ KM+KRG  +Q  EN+K+ + K   RGG     Q S+ + P   V Q P  Q++ + PP   +SV   N  +S    Q  + GPG V  FPQ  Q PGF APS+GVW+NG+PCQP QS  F N    N M  LQQ+  QQ Y+MP  NGMP  QQF   Q +P N VFPGGH  FS G                          F+   ++  Q+ +N                  QLP  FG     +G+Q  +A   +N G+QGV P     E+N   +P   +P +T   QNF+ G   GRGR SY
Sbjct:  356 VLSIIGSQVIVEGVEKHNPLNEGSILWITEQRSPLGLVDEIFGPVKNPYYMVRYNSDNDVPAGIGQGTLVSFVPEFVNHVLNDNNLYKKGYDASGDNDEPLSDEVEFSDDEKEAEYRRMLKMTKRGMNNQKHENKKKERKKFNNRGGTCRNGQPSTTEVPT-GVCQPPVDQHKLYIPPAAAVSVYHDNCRSSSGTGQGLS-GPGFVAPFPQLAQAPGFTAPSTGVWINGMPCQPQQSMGFPNSYPTNGMPWLQQSHHQQSYNMPLPNGMPFQQQFDPSQRLPVNAVFPGGHSNFSAGP------------------------GFAPWPLSMGQSGYN------------------QLP--FG-----MGLQVHNARPPINVGEQGV-PSNGSQERNCDMRPPFVSPGNTQVCQNFNQGAYSGRGRKSY 731

HSP 2 Score: 87.4261 bits (215), Expect = 3.857e-15
Identity = 85/262 (32.44%), Postives = 122/262 (46.56%), Query Frame = 0
 
Query:    1 MGGFVNDPSFKVKLEDNKEAVLESSEVNKSIDSLGALYIPEIDDLSLSLADSFLDFDCLKDYIEENQEPFMAGVKQELGMVGGEVLDSGVVGESLEMGQDGSFGGVGVEDGFREVGSDVGRDGFQEVVGKSFEVGREDSCRETNGEDGVGKFGSLIEEEMGKVSLD-ESGGNGVGEGLGDIEKVVMCEMEDGLEGLERSDKLVGVEGSELERGEM--GNVECGGEKSCEIDGAEGGGIEKPCFNGKLGDSGNTLTIDGVGTK 259
            M  F+ DP+ +  L +N+ + L++SE       L  L  PE+DD S + ADSFLDFDC+KD+IEEN +P++   K +   V    +  GVV + +EM +DGS                                 RE S  +  G D  G  GSLIEEEMGKV L+    G+ V +G G                  +S+++VGV+G+ +   E+  GN    G  S EI G  G G++          S  T+++DG G K
Sbjct:    1 MVEFLYDPTIEEDL-NNQPSKLKNSE------DLPDLSPPELDDFSSAFADSFLDFDCMKDWIEENPDPYVIEPKPDPDTVDLGKVVFGVVDKRIEMAEDGSC--------------------------------RETSVGDPTG-DCSGNLGSLIEEEMGKVKLECPLDGSVVVDGNG-----------------VKSERIVGVDGNGVASIEISTGNGNGNGAVSVEIMGFNGNGVK----------SVETVSVDGNGAK 195
[Close]
BLAST of DCAR_019194 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5J5A314 (H/ACA ribonucleoprotein complex non-core subunit NAF1 {ECO:0000256|ARBA:ARBA00021438})

HSP 1 Score: 348.591 bits (893), Expect = 8.474e-107
Identity = 216/431 (50.12%), Postives = 256/431 (59.40%), Query Frame = 0
 
Query:  303 VKEIVGTQVIVEGVEKHDPLNEGSILWITEKRSPLGIVDEIFGPVKNPYYIVRYNSENEVPVGIQQGTSVSFVPEFVNHILNNGNLYKKGYDASGENDEEISEEAEFSDDEKEAEYKRLQKMSKRGPKDQTLENRKRNKNKSKRRGGQWGGDQHSSAKEPNERVVQAPSIQNQHFRPP--LSVNQGNSSNSMRPVQAFAGGPGLVPVFPQAPQVPGFVAPSSGVWMNGIPCQPPQST-----FSNGPTPNNMLQLQQNQAQQPYHMPPFNGMPL-QQFSTGQMMPPNFVFPGGHPGFSMGAFTPMNQMMFSQNNFGQLQAGASQNNFSQLHVAAAQNNFNHSQAAMNMQQQHAINMQGQLPMNFGQSNAAVGMQGQHAPSIVNNGDQGVLPKENQNEQNGSSQPLPATPPSTGGPQNFSSGVKFGRGRNSY 725
            V  I+GTQVIVEGVEKH+PLNEGSILWITEKRSPLG+VDEIFGPVKNPYY+VRYNS+NEVP GI QGT VSFVPEFVNH+LN+ NLYKKGYDASG+NDEE+S+E EFSDDEKEAEY+R++KM+KRG  DQ  EN+K+ KN  K R G W   Q S++  P   V Q P  QN+ + PP  +SV  GN  +S    Q FA GPG VP FPQ  Q PGF APS+ VWMNG+ CQ  QS      +   PT N M  +QQ++ QQ Y+MP  NGMP  QQF   Q +  N V PGG   FS+G                          F+    A  Q+ FN S   M                         G+QG +A   +N G+QGV     Q   N   QP      +T  PQNF+ G  FGRG+  Y
Sbjct:  319 VLSIIGTQVIVEGVEKHNPLNEGSILWITEKRSPLGLVDEIFGPVKNPYYVVRYNSDNEVPAGIGQGTLVSFVPEFVNHVLNDNNLYKKGYDASGDNDEELSDEMEFSDDEKEAEYRRMRKMTKRGMNDQKHENKKKEKNNFKNRSGTWRNGQPSTSAVPT-GVCQPPVDQNKLYIPPAAVSVYHGNYGSSFGTGQGFADGPGFVPPFPQLAQAPGFTAPSNCVWMNGMACQQQQSMGFPSGYPTNPT-NVMPWMQQSRHQQSYNMPLPNGMPFQQQFDPSQRV--NVVLPGGQSNFSVGP------------------------PFAPWSSAMGQSGFNQSPFGM-------------------------GVQGHNAHPPINGGEQGVPSNGLQQGHNCDLQPPFVIQCNTEVPQNFNQGRYFGRGKKPY 696

HSP 2 Score: 83.1889 bits (204), Expect = 9.099e-14
Identity = 84/271 (31.00%), Postives = 122/271 (45.02%), Query Frame = 0
 
Query:    1 MGGFVNDPSFKVKLEDNKEAVLESSEVNKSIDSLGALYIPEIDDLSLSLADSFLDFDCLKDYIEENQEPFMAGVKQELGMVGGEVLDSGVVGESLEMGQDGSFGGVGVEDGFREV--GSDVGRDGFQEVVGKSFEVGREDSCRETNGEDGVGKFGSLIEEEMGKVSLDESGGNGVGEGLGDIEKVVMCEMEDGLEGLE----RSDKLVGVEGSELERGEMGNVECGGEKSCEIDGAEGGGIEKPCFNGKLGDSGNTLTIDGVGTKIGGNMS 265
            M GF+ +P+ +  L D      + S++  S D +    +PE+DD S S ADSFLDFD +KD++EE  +P++   K E   V    ++ GVV + LEM +DGS         FRE   G  +G                   C  T     +G  GSLIEEEMGKV L+                   C + DG   ++    +S+++VGV+G+     E  N      +S EI G          FNG    SG+ + ++G G K G  +S
Sbjct:    1 MVGFLYEPTIEDDLND------QPSKLKNSEDQV-DFSLPELDDFSSSFADSFLDFDSIKDWMEEKPDPYVIEPKPEPDTVDLGKVEFGVVKKRLEMAEDGS---------FRETTAGDPLG------------------DCSGT-----LGNLGSLIEEEMGKVKLE-------------------CPL-DGSVAVDGYGVKSERIVGVDGNGAVSIESSNGNGKSAESVEIMG----------FNGNGARSGDLVCVNGDGPKSGTIVS 202
[Close]
BLAST of DCAR_019194 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A2R6QC87 (H/ACA ribonucleoprotein complex non-core subunit NAF1 {ECO:0000256|ARBA:ARBA00021438})

HSP 1 Score: 338.191 bits (866), Expect = 1.242e-102
Identity = 184/325 (56.62%), Postives = 220/325 (67.69%), Query Frame = 0
 
Query:  303 VKEIVGTQVIVEGVEKHDPLNEGSILWITEKRSPLGIVDEIFGPVKNPYYIVRYNSENEVPVGIQQGTSVSFVPEFVNHILNNGNLYKKGYDASGENDEEISEEAEFSDDEKEAEYKRLQKMSKR----GPKDQTLENRKRNKNKSKRRGGQWGGDQHSSAKEPNERVVQAPSIQNQHFRPP---LSVNQGNSSNSMRPVQAFAGGPGLVPVFPQAPQVPGFVAPSSGVWMNGIPCQPPQS-------TFSNGPTPNNMLQLQQNQAQQPYHMPPFNGMPL-QQFSTGQMMPPNFVFPGGHPGFSMGA-FTPMNQMMFSQNNFGQ 611
            +  I+G QVIVEGVEKH+PLNEGSILWITE R+PLG+VDEIFGPVKNPYY++RYNSENE+P G++QGT +SFVPEF +H+LN+ NLYKKGYDASGENDEEI++E EFSDDEKEAEYKR+QKM+KR    GPK   L N+K++  K + RGG W  +   S  +  E V + P  +NQH  PP    ++  G+SS+S    Q FAG P LVP FPQ  Q  GF+ PSSGVW NG+PC+  Q         F  G   N M  LQQN  QQ   MP  +GMP  QQF  GQM+PPN V PGG   F  G  F P     F QN+F Q
Sbjct:  338 ILSILGPQVIVEGVEKHNPLNEGSILWITESRTPLGLVDEIFGPVKNPYYMIRYNSENEIPAGVKQGTPISFVPEFADHVLNDSNLYKKGYDASGENDEEIADEFEFSDDEKEAEYKRMQKMTKRGGTNGPK---LGNKKKDMKKFENRGGAWRQNNQPSTPQTPEGVSRPPINRNQHRNPPPPTATLYHGDSSHSFGTGQGFAGSPSLVPPFPQLFQASGFIPPSSGVWTNGVPCEQQQQQQQPQGMVFPVGVPTNGMPWLQQNPLQQTPQMPLPSGMPFQQQFVPGQMLPPNLVSPGGQSNFGAGTGFVPW-PGCFGQNSFNQ 658

HSP 2 Score: 64.3142 bits (155), Expect = 7.250e-8
Identity = 77/277 (27.80%), Postives = 116/277 (41.88%), Query Frame = 0
 
Query:    1 MGGFVNDPSFKVKLEDNKEAVLESSEVNKSIDSLGALYIPEIDDLSLSLADSFLDFDCLKDYIEENQEPFMAGVKQELGMVGGEVLDSGVVGESLEMGQDGSFGGVGVEDGFREVGSDVGRDGFQEVVGKSFEVGREDSCRETNGEDGVGKFGSLIEEEMGKVSLDESGGNGVGEGLGDIEKVVMC---EMEDGLEGLERSDKLVGVEGSELERGE-MGNVECGGEKSCEIDGAEGGGIEKPCFNGKLGDSGNTLTIDGVGTKIGGNMSDEDDSESE 273
            M GF+ DP+ + +L   +   L+ SE    +D    L +PE +D S S ADSFLDFD ++D+IEEN                  VLD       +E  + GS G   + DGFR++G                                     + IEE++ K SLD     G+      ++   +C        + G++  D++V V G  L+ GE +GN      KS +I G +  G E    NG +  SG TL  D    K G  +++ +  +SE
Sbjct:    1 MVGFLQDPTIEDELSQQQ---LKKSENPLPLD----LSLPEFNDFSSSFADSFLDFDSIRDWIEEN-----------------PVLDMDDSKPEIEKVKGGSCGETEIGDGFRKLGD----------------------------------LSASIEEKIVKFSLD----GGLDSLDTSVQPPSVCGNASKSVDIVGVDEKDEIVSVNGGVLKSGETLGN----ASKSVDIVGVDEKG-EIVSVNGGVLKSGETLGTDESDKKSGETVANGECQKSE 210
[Close]
BLAST of DCAR_019194 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A2R6QX12 (H/ACA ribonucleoprotein complex non-core subunit NAF1 {ECO:0000256|ARBA:ARBA00021438})

HSP 1 Score: 330.487 bits (846), Expect = 2.980e-100
Identity = 176/317 (55.52%), Postives = 213/317 (67.19%), Query Frame = 0
 
Query:  303 VKEIVGTQVIVEGVEKHDPLNEGSILWITEKRSPLGIVDEIFGPVKNPYYIVRYNSENEVPVGIQQGTSVSFVPEFVNHILNNGNLYKKGYDASGENDEEISEEAEFSDDEKEAEYKRLQKMSKRGPKDQTLENRKRNKNKSKRRGGQWGGDQHSSAKEPNERVVQAPSIQNQHFRPP---LSVNQGNSSNSMRPVQAFAGGPGLVPVFPQAPQVPGFVAPSSGVWMNGIPCQPPQS---TFSNGPTPNNMLQLQQNQAQQPYHMPPFNGMPL-QQFSTGQMMPPNFVFPGGHPGFSMGA-FTPMNQMMFSQNNFGQ 611
            +  I+G QVIVEG+EKH+PLNEGSILWITE R+PLG+VDEIFGPVKNPYY++RYNSENE+P G++QGTS+SFVPEF +H+LN+ NLYKKGYDASGENDEEI++E EFSDDEKEAEYKR+QKM+KRG  +  L+   +++ K +  GG W  +   S  +  E V + P  QNQH  PP    ++  G+SS+S+   Q F G P LVP FPQ  Q PGF+ PSSGVW NG+PC   Q     F  G   N M  LQQN  QQ   MP  NGMP  QQF   QM+ PN V  GG   F  G  F P        N+F Q
Sbjct:  300 ILSILGPQVIVEGLEKHNPLNEGSILWITESRTPLGLVDEIFGPVKNPYYMIRYNSENEIPAGVKQGTSISFVPEFADHVLNDSNLYKKGYDASGENDEEIADEFEFSDDEKEAEYKRMQKMTKRGGTN-GLKLGNKDRKKFENHGGAWRQNNQPSTPQTPEGVSRPPINQNQHHNPPPLTAALRHGDSSHSLGTGQGFVGSPSLVPPFPQLFQAPGFIPPSSGVWTNGVPCDQQQQQGMVFPVGVLTNGMPWLQQNPLQQSPQMPLPNGMPFQQQFVPSQMLRPNLVSSGGQSNFGAGTGFGPWRGGCLGPNSFNQ 615
[Close]
BLAST of DCAR_019194 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A4S4D7Q7 (H/ACA ribonucleoprotein complex non-core subunit NAF1 {ECO:0000256|ARBA:ARBA00021438})

HSP 1 Score: 323.168 bits (827), Expect = 3.967e-97
Identity = 210/438 (47.95%), Postives = 249/438 (56.85%), Query Frame = 0
 
Query:  303 VKEIVGTQVIVEGVEKHDPLNEGSILWITEKRSPLGIVDEIFGPVKNPYYIVRYNSENEVPVGIQQGTSVSFVPEFVNHILNNGNLYKKGYDASGENDEEISEEAEFSDDEKEAEYKRLQKMSKRGPKDQTL-ENRKRNKNKSKRRGGQWGGDQHSSAKEPNERVVQAPSIQNQHF--RPPLSVNQGNSSNSM-RPVQAFAGGPGLVPVFPQAPQVPGFVAPSSGVWMNG-IPCQPPQS--TFSNGPTPNNMLQLQQNQAQQPYHMPPFNGMPLQ---QFSTGQMMPPNFVFPGGHPGFSMG-AFTPMNQMMFSQNNFGQLQAGASQNNFSQLHVAAAQNNFNHSQAAMNMQQQHAINMQGQLPMNFGQSNAAVGMQGQHAPSIVNNGDQGVLPKENQNEQNGSSQPLPATP--PSTGGPQNFSSGVKFGRGRNSYQR 727
            +  IVGTQVIVEGVEKH+PLNEGSILWITE RSPLG+VDEIFGPVKNPYYI+RYNSENEVP G++QGTS+SFV EF  H+LN+ +LYKKGYDASGENDEE+SEEAEFSDDEKEAEYKR+ KM+KRG  D  +  NRK+++ K K  GG W   + S+ +   E V Q P+ QN+    RP  S++ G+ S S     Q F+  P LVP FPQ  Q PGF+  SSGVW NG +PC+  Q    F NG   N M  +QQNQ QQ Y MP  N MP Q   QF   Q +PPN VFP   P F  G AF P           G L      N  S + +   Q   + +      Q   +IN               VG Q + AP  +N G                 QP P  P       PQ F+ GV  GRG   Y  
Sbjct:  307 ILSIVGTQVIVEGVEKHNPLNEGSILWITESRSPLGLVDEIFGPVKNPYYIIRYNSENEVPAGVEQGTSISFVREFAQHVLNDSSLYKKGYDASGENDEELSEEAEFSDDEKEAEYKRMLKMTKRGSNDPKVGNNRKKDRKKFKNHGGTWQKSRPSTPQT-QEGVCQPPTNQNKRCAPRPAASLDNGSCSYSFGTGQQGFSSSPSLVPPFPQLVQAPGFIPTSSGVWTNGMMPCEQQQQNMVFHNGVPTNGMPWMQQNQFQQSYQMPLPNRMPFQQQMQFVPSQSLPPNMVFPAAQPNFCAGPAFAPWP---------GSLGQSGGFNQPSGMGLQCQQAPISRNVGEQPRQPSMSIN---------------VGEQQRQAPMSMNVG-----------------QPRPLIPGNIEVSQPQQFNQGVHRGRGSKPYHH 702
[Close]
BLAST of DCAR_019194 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A1Q3D592 (H/ACA ribonucleoprotein complex non-core subunit NAF1 {ECO:0000256|ARBA:ARBA00021438})

HSP 1 Score: 315.079 bits (806), Expect = 3.156e-94
Identity = 171/317 (53.94%), Postives = 208/317 (65.62%), Query Frame = 0
 
Query:  303 VKEIVGTQVIVEGVEKHDPLNEGSILWITEKRSPLGIVDEIFGPVKNPYYIVRYNSENEVPVGIQQGTSVSFVPEFVNHILNNGNLYKKGYDASGENDEEISEEAEFSDDEKEAEYKRLQKMSKRGPKDQTLENRKRNKNKSKRRGGQWGGDQHSSAKEPNERVVQAPSIQNQHFRPPLSVNQGN---SSNSMRPVQAFAGGPGLVPVFPQAPQVPGFVAPSSGVWMNGIPCQPPQS-TFSNGPTPNNMLQLQQNQAQQPYHMPPFNGMPL-QQFSTGQMMPPNFVFPGGHPGFSMGA----FTPMNQMMFSQNNFG 610
            V  I+G ++IVEGVEKH+PLNEGSILWITE R+ LG+VDEIFGPVKNPYY+VRYNSE+EVP GI +GTSVSFVPEF NH+LN+ NL+KKGYDAS ENDEE+S+E EFSDDEKEAEY+R+QKM+KRG  DQ   N K+N+ K K R  +    +HS+ + P     Q PS    H  P  +   GN   SS+++RP   F  G G++P FP   Q  GF+ PS+G+W NG+ CQ PQS  F NG   N +    QN  Q PY MP  N MP  QQF   Q   PN  FPGG   F          P +Q+ F+Q  FG
Sbjct:  321 VSSIIGVKIIVEGVEKHNPLNEGSILWITESRALLGLVDEIFGPVKNPYYVVRYNSESEVPTGIHEGTSVSFVPEFANHVLNDQNLHKKGYDASNENDEELSDEIEFSDDEKEAEYRRMQKMAKRGINDQKPGNMKKNRKKVKERNERQNNARHSAQQTPIRAGQQPPSQTQYHVSPAATSLAGNNCQSSSAIRP--GFVSGAGIIPPFPPMAQPMGFINPSNGIWANGMLCQQPQSAVFPNGYPNNGIPMFPQNLNQHPYQMPMQNLMPFHQQFDPSQRSLPNVGFPGGQSNFFAAPNAPWLGPASQIGFNQATFG 635
[Close]
BLAST of DCAR_019194 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A6P5YP87 (H/ACA ribonucleoprotein complex non-core subunit NAF1 {ECO:0000256|ARBA:ARBA00021438})

HSP 1 Score: 312.383 bits (799), Expect = 2.654e-93
Identity = 204/454 (44.93%), Postives = 248/454 (54.63%), Query Frame = 0
 
Query:  303 VKEIVGTQVIVEGVEKHDPLNEGSILWITEKRSPLGIVDEIFGPVKNPYYIVRYNSENEVPVGIQQGTSVSFVPEFVNHILNNGNLYKKGYDASGENDEEISEEAEFSDDEKEAEYKRLQKMSKRGPKDQTLENRKRNKNKSKRRGGQWGGDQHSSAKEPNERVVQAPSIQNQHFRPPLSVNQGNSSNSMRPVQAFAGGPGLVPVFPQAPQVPGFVAPSSGVWMNGIPCQPPQ-STFSNGPTPNNMLQLQQNQAQQPYHMP-PFNGMP------LQQFSTGQMMPPNFVFPGGHPGFSMGAFTPMNQMMFSQNNFGQLQAGASQNNFSQLHVAAAQNNFNHSQAAMNMQQQHAINMQGQLPMNFGQSNAAVGMQGQHAPSIVNNGDQGVLPKENQNEQNGSSQPLPATPPSTGGPQNFSSGVKFGRGRNSYQ--RGGGRFGGRGGRGRGRGRQQ 746
            V   +GT+V+VEG ++H PLNEGSILWIT  RSPLG+VDEIFGPVKNPYY+VRYNSE+E+P GI +GTS+SFVPEF NH+LN+ NL+KKGYDASGENDEE+S++AEFSDDEKEAEYKR+QK +KRG  DQ +ENRK NK K K R G W  D+ SSA++ +  V   P  QNQH    +S    N+ +S    Q F GG G VP F   PQ  GF+ PS+GVW NG+P Q PQ + F N  +   M  L QN  QQP  +P P   MP      LQQF       P+ V PG       G        +  QN       G SQ  F                                           VGMQGQ   S +    QG+L      + N + QP  +   +    QNF+ G    RG+ SY+  RG GRF G      GRG QQ
Sbjct:  301 VLSTIGTKVVVEGRDQHSPLNEGSILWITIGRSPLGLVDEIFGPVKNPYYVVRYNSESEIPAGINEGTSISFVPEFANHVLNDKNLHKKGYDASGENDEELSDDAEFSDDEKEAEYKRMQKWTKRGMNDQGVENRKGNKKKVKSRNGAWKNDR-SSAQQTSTAVGHLPPNQNQHNFSTVSAPLDNNCSSSVLEQNFVGGSGFVPPFSIMPQSSGFITPSNGVWTNGVPRQQPQNAIFPNMFSVEGMPLLSQNY-QQPIPLPTPAMRMPTMMPYQLQQFDPCLSTFPSVVLPGSQSNLFAGPACAPWLGIAGQN-------GCSQTTF------------------------------------------GVGMQGQQFLSAL----QGILSNGTTADGNCNLQP-KSIQGNFDTSQNFNIGASSSRGKTSYRRGRGSGRFTG------GRGHQQ 692

HSP 2 Score: 58.5362 bits (140), Expect = 4.071e-6
Identity = 58/168 (34.52%), Postives = 81/168 (48.21%), Query Frame = 0
 
Query:    1 MGGFVNDPSFKVKLEDNKEAVLESSEVNKSIDSLGALYIPEIDDLSLSLADSFLDFDCLKDYIEENQEPFMAGVKQELGMVGGEVLDSGVVGESLEMGQDGSFGGVGVEDGFREVGSDVGRDGFQEVVGKSFEVGREDSCR---ETNGEDGVGKFGSLIEEEMGKVSL 165
            M GF  +PS    +E++   V +       ID    L  P+++DLS   ADSFLDFD +K++  +N           L  VG E  + G +G+ +E+G++ +F      D     GS+   D F+ +V  S  VG E  C    E       GK  S IEEEMGKVSL
Sbjct:    1 MVGFFPEPS----IEEDPNLVSKLKIFKDPID----LLDPKLNDLSA--ADSFLDFDSIKEWFGDN---------PNLDRVGLEESEFGDIGKHMEIGKEDNFEKTHFGDPTVN-GSEPDFDVFKPIVCGSELVGGESGCTVKVEEEESKPEGKLSSSIEEEMGKVSL 148
[Close]
BLAST of DCAR_019194 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5C7HDK5 (H/ACA ribonucleoprotein complex non-core subunit NAF1 {ECO:0000256|ARBA:ARBA00021438})

HSP 1 Score: 305.834 bits (782), Expect = 1.402e-90
Identity = 194/427 (45.43%), Postives = 237/427 (55.50%), Query Frame = 0
 
Query:  303 VKEIVGTQVIVEGVEKHDPLNEGSILWITEKRSPLGIVDEIFGPVKNPYYIVRYNSENEVPVGIQQGTSVSFVPEFVNHILNNGNLYKKGYDASGENDEEISEEAEFSDDEKEAEYKRLQKMSKRGPKDQTLENRKRNKNKSKRRGGQWGGDQHSSAKEPNERVVQAPSIQNQHFRPPLSVNQGNSSNSMRPVQAFAGGPGLVPVFPQAPQVPGFVAPSSGVWMNGIP-CQPPQSTFSNGPTPNNMLQLQQNQAQQPYHMPPFNGMP-LQQFSTGQMMPPNFVFPGGHPGFSMG-AFTPMNQMMFSQNNFGQLQAGASQNNFSQLHVAAAQNNFNHSQAAMNMQQQHAINMQGQLPMNFGQSNAAVGMQGQHAPSIVNNGDQGVLPKENQNEQNGSSQPLPATPPSTGGPQNFSSGVKFGRGRNSYQ 726
            V  ++G QVIVEGVEKH+PLNEGS+LWITE RS LG++DE+FGPVKNPYY+VRYN ++EVP GI  GTS+SFV EF NH+LN+ NLYKKGYDASG+NDEE+S EAEFSDDEKEAEY+R  KM KRG  DQ   N+K N+ K + R G     +HS  +   + V Q P  Q+QH  P +  ++GN S+S    Q F GG GLVP FP   Q+ GF    +GVW NG+P  QP  + F NG   N M    QN  Q P  MP  N MP LQQF   Q   PN   PG  P    G A+ P   ++              QN  +Q++         H   ++N  Q   +   G L   FG     +G QGQ APS VN G+Q                  P   PS   PQ F+ G     GR  Y 
Sbjct:  318 VLSVLGAQVIVEGVEKHNPLNEGSVLWITESRSLLGLIDEVFGPVKNPYYMVRYNLDSEVPAGIHVGTSISFVQEFANHVLNDKNLYKKGYDASGDNDEEVS-EAEFSDDEKEAEYRRNLKMEKRGMNDQKPGNKKNNRKKIRNRDGALQNGRHSIQQM--DGVGQLPQNQDQHHYPAVPADRGNCSSSSAIGQGFVGGTGLVPQFPPMAQMAGFTGTMNGVWANGMPSLQPQNAVFPNGFPSNGMPWHPQNYQQHPNQMPMMNSMPYLQQFDPSQRSHPNVALPGMQPNLLAGPAYAPWLGLV-------------GQNGLNQMYGMGLPGQPMH--PSINAGQAGFVGQNG-LNQTFG-----MGFQGQPAPSSVNAGEQ------------------PNVQPSE-APQQFNMGASSNWGRKPYH 701
[Close]
BLAST of DCAR_019194 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A1R3JVV4 (H/ACA ribonucleoprotein complex non-core subunit NAF1 {ECO:0000256|ARBA:ARBA00021438})

HSP 1 Score: 304.679 bits (779), Expect = 6.149e-90
Identity = 203/443 (45.82%), Postives = 250/443 (56.43%), Query Frame = 0
 
Query:  303 VKEIVGTQVIVEGVEKHDPLNEGSILWITEKRSPLGIVDEIFGPVKNPYYIVRYNSENEVPVGIQQGTSVSFVPEFVNHILNNGNLYKKGYDASGENDEEISEEAEFSDDEKEAEYKRLQKMSKRGPKDQTLENRKRNKNKSKRRGGQW--GGDQHSSAKEPNERVVQAPSIQNQHFRPPLSVNQGNSSNSMRPV--QAFAGGPGLVPVFPQAPQVPGFVAPSSGVWMNGIPCQPPQS-TFSNGPTPNNMLQLQQNQAQQPYHMP-PFNGMPLQQ---FSTGQMMPPNFVFPGGHPG-FSMGAFTPMNQMMFSQNNFGQLQAGASQNN--FSQLH-------VAAAQNNFNHSQAAMNMQQQHAINMQGQLPMNFGQSNAAVGMQGQHAPSIVNNGDQGVLPKENQNEQNGSSQPLPATPPSTGGPQNFSSGVKFGRGRNSYQ 726
            V  I+GT+VIVEG EKH+PLNEGSILWIT  RSPLG+VDEIFGPV NPYY+VRYNSE EVP GI +GTS+SFVPEF NH+LN+ NLYKKGYDASGENDEE+S+ AEFSDDEKEAEYK++ KMSKRG  DQ   NRK NK K K R G W  GG+   SA++ +  V Q    +N+H    +S     S +S  P+  Q F GG   V  F   PQ  G +  S+GVW NG+P Q PQ+  F N      M  L QN  QQP+ +P P   +P QQ    S    +P   + PGG P  FS  A+ P    +  QN FGQ      Q     S +H       +A   +N        N +    +NM       F Q+    GMQGQ   S V    QG+L      + N + QP    P +    QNF++G   GRG+  + 
Sbjct:  288 VLSIIGTKVIVEGREKHNPLNEGSILWITVDRSPLGLVDEIFGPVTNPYYVVRYNSEIEVPAGIHEGTSISFVPEFANHVLNDNNLYKKGYDASGENDEELSDYAEFSDDEKEAEYKKMLKMSKRGTNDQKGGNRKSNKKKVKSRDGAWKNGGN---SAQQTSTTVGQLAPDENEHDFSTVSA----SLDSCSPIGRQNFVGGSNFVQPFSVMPQSSGIIPSSNGVWTNGMPGQEPQNPIFPNRFPAEGMTMLSQNYQQQPFPLPTPAMPIPYQQQQFISCMNTLPG--MLPGGQPNLFSGPAYAPW-LGIGGQNGFGQTSGVGMQGQQLLSAVHSMLANGAMADGNSNVQPKGVHGNFETSQNVNMGN----GFSQTTFGAGMQGQQLLSAV----QGILASGAMADGNCNVQP-GGVPDNFESYQNFNTGASSGRGKRPFH 711
[Close]
BLAST of DCAR_019194 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A6A1VB28 (H/ACA ribonucleoprotein complex non-core subunit NAF1 {ECO:0000256|ARBA:ARBA00021438})

HSP 1 Score: 301.982 bits (772), Expect = 1.304e-89
Identity = 194/437 (44.39%), Postives = 240/437 (54.92%), Query Frame = 0
 
Query:  303 VKEIVGTQVIVEGVEKHDPLNEGSILWITEKRSPLGIVDEIFGPVKNPYYIVRYNSENEVPVGIQQGTSVSFVPEFVNHILNNGNLYKKGYDASGENDEEISEEAEFSDDEKEAEYKRLQKMSKRGPKDQTLENRKRNKNKSKRRGGQWGGDQHSSAKEPNERVVQAPSIQNQHFRPPLSVNQGNSSNSMRPVQAFAGGPGLVPVFPQAPQVPGFVAPSSGVWMNGIPCQPPQST-FSNGPTPNNMLQLQQNQAQQPYHMPPFNGMPLQQFSTGQMMPPNFVFPGGHPGFSMGAFTPMNQMMFSQNNFGQLQAGASQNNFSQLHVAAAQNN-FNHSQAAMNMQQQHAINMQGQLPMNFGQSNAAVGMQGQHAPSIVNNGDQGVLPKENQNEQNGSSQPLPATPPSTGGPQNFSSGVKFGRGRNSYQRGGGRFGGRGG 737
            V  I+G Q+IVEG+EKH+PL EGSILWITE+R+PLG+VDEIFGPVKNPYY VRYNS+ EVP GI  GT +SFV +F NH+LN+ +LYKKGYDASG NDEE+ +EAEFSDDEKEAEY+R+QKM+KRG  DQ + ++K N+ K   R G W   Q  S ++P   + +  S QNQH   P +   G         Q+F  G GLVP FP   Q          VW NG+P QPPQ+  F NG   N M  L QN    PY     + MPL                              N+MMF Q      Q   SQ +     + A Q+N F     A  +  ++ IN      M FG     +G+QGQ     +N G+Q VL  E+Q EQN + Q    TP S    Q  +S    GRGR  Y+RGGGRF G  G
Sbjct:  302 VLSIIGAQLIVEGLEKHNPLTEGSILWITERRAPLGLVDEIFGPVKNPYYKVRYNSDGEVPSGILAGTLISFVADFANHVLNDKDLYKKGYDASGANDEEVFDEAEFSDDEKEAEYRRMQKMTKRGMNDQNISSKKNNRKKGNCRDGPWRSAQ-PSPRQPQTSIGRVASNQNQHNFSPAAAFVG---------QSFVSGTGLVPPFPPTAQT---------VWTNGMPFQPPQTAIFPNGFPTNGMTWLAQN----PYQ----HQMPLP-----------------------------NRMMFQQ------QFDPSQRSLPTAILPAEQSNMFVGPTCAQGLVDRNGINQ-----MTFG-----LGLQGQRIHPSMNMGEQVVLSNESQVEQNCNMQQSVFTPGSVD--QQINSVASSGRGRKPYRRGGGRFTGARG 664
Match NameStatsDescription
A0A5B7BRW9E-Value: 5.255e-108, PID: 49.30H/ACA ribonucleoprotein complex non-core subunit N... [more]
A0A5J5A314E-Value: 8.474e-107, PID: 50.12H/ACA ribonucleoprotein complex non-core subunit N... [more]
A0A2R6QC87E-Value: 1.242e-102, PID: 56.62H/ACA ribonucleoprotein complex non-core subunit N... [more]
A0A2R6QX12E-Value: 2.980e-100, PID: 55.52H/ACA ribonucleoprotein complex non-core subunit N... [more]
A0A4S4D7Q7E-Value: 3.967e-97, PID: 47.95H/ACA ribonucleoprotein complex non-core subunit N... [more]
A0A1Q3D592E-Value: 3.156e-94, PID: 53.94H/ACA ribonucleoprotein complex non-core subunit N... [more]
A0A6P5YP87E-Value: 2.654e-93, PID: 44.93H/ACA ribonucleoprotein complex non-core subunit N... [more]
A0A5C7HDK5E-Value: 1.402e-90, PID: 45.43H/ACA ribonucleoprotein complex non-core subunit N... [more]
A0A1R3JVV4E-Value: 6.149e-90, PID: 45.82H/ACA ribonucleoprotein complex non-core subunit N... [more]
A0A6A1VB28E-Value: 1.304e-89, PID: 44.39H/ACA ribonucleoprotein complex non-core subunit N... [more]

Pages

back to top
Analysis: 
NameDescription
Carrot Genome Assembly DCARv2

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
Authors' original naming scheme: Sequences with DCARv2 prefix are the original assembly as submitted to NCBI. These are labelled DCARv2_Chr1 through DCARv2_Chr9 for the chromosome pseudomolecules, DCARv2_MT and DCARv2_PT for the organellar assemblies, DCARv2_B1 and up for unincorporated superscaffolds, DCARv2_S26.1 and up for unincorporated scaffolds, and DCARv2_C10542132 and up for unincorporated contigs. A file with sequences using this naming scheme can be downloaded from the File: link below.
These sequences can be viewed in JBrowse here.

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
DCAR peptide blastp to SwissProt and TrEMBL without DCAR

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.
DCAR V1.0 Gene Prediction

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.