Resource Type:
Polypeptide
Name:
XM_017403496.1
Identifier:
XM_017403496.1-protein
Sequence:
MEALHISAISHTYKSHQTPSFNSARTSTPHICSAYSSSTHSRSLLSHSTY
NSFTRQLWGFVHSSSTDRKRDLRRGLVVRAEMFGQLTSGLESAWNKLKGE
EILTKENIVEPMRDIRRALLEADVSLPVVRRFIQSVSEQAVGVGVTRGVK
PDQQLVKIVSEELVKLMGGEVSELSFAKSGPTVILLAGLQGVGKTTVSAK
LAVYLKKQGKSCMLIAGDVYRPAAIDQLLILGKQVDVPVYSMGTDVKPAE
IARKGLLEAKKKNVDVVIMDTAGRLQIDKDMMDELKEVKRELNPTEVLLV
VDAMTGQEAAALVTTFNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPI
KLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMRQEDAEDIQ
KKIMSAKFDFNDFLKQTRAVAQMGSMSRVLGMIPGMGKVTPAQIREAEKS
LKIMEGMIEAMTPEEREKPELLAESPARRKRVAQDSGKTEQQVNQLVAQL
FQMRVRMKNLMGVMEGGSVPALSNLQEALKSEQKAPPGTARRKRRSQSRK
QFAESTSSMPSPRGFGSK
Sequence Length:
568
Sequence Checksum:
ebf5917240a8872c9a591b86d05d2f25
View location in JBrowse:
Organism:
Relationship:
| Relationships |
|---|
| The polypeptide, XM_017403496.1, derives from mRNA, XM_017403496.1. |
Blast Results:
The following BLAST results are available for this feature:
BLAST of XM_017403496.1 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Analysis Date: 2022-01-09
Analysis Name: NCBI peptide blastp to SwissProt and TrEMBL without DCAR
Total hits: 10
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Analysis Date: 2022-01-09
Analysis Name: NCBI peptide blastp to SwissProt and TrEMBL without DCAR
Total hits: 10
BLAST of XM_017403496.1 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A6S7PE84 (SRP54 domain-containing protein {ECO:0000259|PROSITE:PS00300})
HSP 1 Score: 947.962 bits (2449), Expect = 0.000e+0
Identity = 475/566 (83.92%), Postives = 516/566 (91.17%), Query Frame = 0
Match: A0A6S7PE84 (SRP54 domain-containing protein {ECO:0000259|PROSITE:PS00300})
HSP 1 Score: 947.962 bits (2449), Expect = 0.000e+0
Identity = 475/566 (83.92%), Postives = 516/566 (91.17%), Query Frame = 0
Query: 1 MEALHISAISHTYKSHQTPSFNSARTSTPHICSAYSSSTHSRSLLSHSTYNSFTRQLWGFVHSSSTDRKRDLRRGLVVRAEMFGQLTSGLESAWNKLKGEEILTKENIVEPMRDIRRALLEADVSLPVVRRFIQSVSEQAVGVGVTRGVKPDQQLVKIVSEELVKLMGGEVSELSFAKSGPTVILLAGLQGVGKTTVSAKLAVYLKKQGKSCMLIAGDVYRPAAIDQLLILGKQVDVPVYSMGTDVKPAEIARKGLLEAKKKNVDVVIMDTAGRLQIDKDMMDELKEVKRELNPTEVLLVVDAMTGQEAAALVTTFNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMRQEDAEDIQKKIMSAKFDFNDFLKQTRAVAQMGSMSRVLGMIPGMGKVTPAQIREAEKSLKIMEGMIEAMTPEEREKPELLAESPARRKRVAQDSGKTEQQVNQLVAQLFQMRVRMKNLMGVMEGGSVPALSNLQEALKSEQKAPPGTARRKRRSQSRKQFAESTSSMPSPRGFG 566
MEAL S ++ + S P +T H ++++ ST +L + +S TR+LWG V S R +RG V+RAEMFGQLTSGLESAWNKLKGEE+LTKENIVEPMRDIRRALLEADVSLPVVRRF+Q+VSEQAVGVGV RGVKPDQQLVKIVS+ELVKLMGGEVSEL+FAKSGPTVILLAGLQGVGKTTVSAKLA+YLKKQGKSCMLIAGDVYRPAAIDQL+ILGKQVDVPVY++GTDVKPAEIAR+GL EAKKKNVDVVIMDTAGRLQIDK+MMDELK+VK+ LNPTEVLLVVDAMTGQEAAALVTTFNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVM+QEDAED+QKKIMSAKFDFNDFLKQTRAVA+MGSMSRVLGMIPGMGKVTPAQIREAEKSL+IME MIE MTPEERE+PELLAESPARRKR+AQ+SGKTEQQV+QLVAQLFQMRVRMKNLMG MEGGSVPALSNL+EA+KSEQKAPPGTARRKR+S+SRKQFA S + P+PRGFG
Sbjct: 1 MEALTFSTVASRHFSTAFPR----KTHPNHSATSWTGSTSPHALSFRFSNSSSTRELWGIVKSQRVIPVRREKRG-VIRAEMFGQLTSGLESAWNKLKGEEVLTKENIVEPMRDIRRALLEADVSLPVVRRFVQTVSEQAVGVGVIRGVKPDQQLVKIVSDELVKLMGGEVSELTFAKSGPTVILLAGLQGVGKTTVSAKLALYLKKQGKSCMLIAGDVYRPAAIDQLVILGKQVDVPVYAVGTDVKPAEIARQGLQEAKKKNVDVVIMDTAGRLQIDKNMMDELKDVKKTLNPTEVLLVVDAMTGQEAAALVTTFNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMKQEDAEDLQKKIMSAKFDFNDFLKQTRAVARMGSMSRVLGMIPGMGKVTPAQIREAEKSLQIMEAMIEVMTPEEREQPELLAESPARRKRIAQESGKTEQQVSQLVAQLFQMRVRMKNLMGAMEGGSVPALSNLEEAIKSEQKAPPGTARRKRKSESRKQFAGS-AGRPNPRGFG 560
BLAST of XM_017403496.1 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5J4ZIW3 (SRP54 domain-containing protein {ECO:0000259|PROSITE:PS00300})
HSP 1 Score: 944.88 bits (2441), Expect = 0.000e+0
Identity = 480/573 (83.77%), Postives = 526/573 (91.80%), Query Frame = 0
Match: A0A5J4ZIW3 (SRP54 domain-containing protein {ECO:0000259|PROSITE:PS00300})
HSP 1 Score: 944.88 bits (2441), Expect = 0.000e+0
Identity = 480/573 (83.77%), Postives = 526/573 (91.80%), Query Frame = 0
Query: 1 MEALHISAISHTYKSHQTPSF------NSARTSTPHICSAYSSSTHSRSLLSHSTYNSFTRQLWGFVHSSSTDRKRDLRRGLVVRAEMFGQLTSGLESAWNKLKGEEILTKENIVEPMRDIRRALLEADVSLPVVRRFIQSVSEQAVGVGVTRGVKPDQQLVKIVSEELVKLMGGEVSELSFAKSGPTVILLAGLQGVGKTTVSAKLAVYLKKQGKSCMLIAGDVYRPAAIDQLLILGKQVDVPVYSMGTDVKPAEIARKGLLEAKKKNVDVVIMDTAGRLQIDKDMMDELKEVKRELNPTEVLLVVDAMTGQEAAALVTTFNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMRQEDAEDIQKKIMSAKFDFNDFLKQTRAVAQMGSMSRVLGMIPGMGKVTPAQIREAEKSLKIMEGMIEAMTPEEREKPELLAESPARRKRVAQDSGKTEQQVNQLVAQLFQMRVRMKNLMGVMEGGSVPALSNLQEALKSEQKAPPGTARRKRRSQSRKQFAESTSSMPSPRGFGS 567
MEA+ S ++ + S +PS S+R ST +ICS+++ ST S ++ S+ NSFTRQ+WG V+S S R RGLV RAEMFGQLTSGLE+AWNKLKGEE+LTKENIVEPMRDIRRALLEADVSLPVVRRF+Q+VSEQAVGVG+ RGV+PDQQLVKIV++EL+KLMGGEVSEL FAKSGPTVILLAGLQGVGKTTV AKLA YLKKQGKSCMLIAGDVYRPAAIDQL+ILG+QVDVPVY+ GT+VKPAEIAR+GL EAK+KN+DVVI+DTAGRLQIDK MMDELKEVKR LNPTEVLLVVDAMTGQEAAALVTTFNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMRQEDAE++QKKIMSAKFDFNDFLKQTRAVA+MGSMSRV+GMIPGMGK+TPAQIREAEKSLKIME MIEAMTPEEREKPELLAESPARRKRVAQ SGKTEQQV+QLVAQLFQMRVRMKNLMGVMEGGS+PALSNL+EALKSEQKAPPGTARRKR+S+SR+QFA+S S+ PSPRGFG+
Sbjct: 1 MEAVSFSTVASRHFSATSPSLPPNKTLYSSRKST-NICSSWAGSTLS---IAFSSRNSFTRQIWGLVNSQSVINVRRDMRGLV-RAEMFGQLTSGLEAAWNKLKGEEVLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVNDELMKLMGGEVSELVFAKSGPTVILLAGLQGVGKTTVCAKLAFYLKKQGKSCMLIAGDVYRPAAIDQLVILGEQVDVPVYTAGTEVKPAEIARRGLEEAKRKNIDVVIVDTAGRLQIDKAMMDELKEVKRALNPTEVLLVVDAMTGQEAAALVTTFNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMRQEDAEELQKKIMSAKFDFNDFLKQTRAVARMGSMSRVIGMIPGMGKITPAQIREAEKSLKIMEAMIEAMTPEEREKPELLAESPARRKRVAQASGKTEQQVSQLVAQLFQMRVRMKNLMGVMEGGSIPALSNLEEALKSEQKAPPGTARRKRKSESRRQFADSASARPSPRGFGA 568
BLAST of XM_017403496.1 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A6N2B070 (SRP54 domain-containing protein {ECO:0000259|PROSITE:PS00300})
HSP 1 Score: 941.414 bits (2432), Expect = 0.000e+0
Identity = 473/571 (82.84%), Postives = 513/571 (89.84%), Query Frame = 0
Match: A0A6N2B070 (SRP54 domain-containing protein {ECO:0000259|PROSITE:PS00300})
HSP 1 Score: 941.414 bits (2432), Expect = 0.000e+0
Identity = 473/571 (82.84%), Postives = 513/571 (89.84%), Query Frame = 0
Query: 1 MEALHISAISHTYKSHQTPSFNSARTSTPHI---CSAYSSSTHSRSLLSHSTYNSFTRQLWGFVHSSSTDRKRDLRRGLVVRAEMFGQLTSGLESAWNKLKGEEILTKENIVEPMRDIRRALLEADVSLPVVRRFIQSVSEQAVGVGVTRGVKPDQQLVKIVSEELVKLMGGEVSELSFAKSGPTVILLAGLQGVGKTTVSAKLAVYLKKQGKSCMLIAGDVYRPAAIDQLLILGKQVDVPVYSMGTDVKPAEIARKGLLEAKKKNVDVVIMDTAGRLQIDKDMMDELKEVKRELNPTEVLLVVDAMTGQEAAALVTTFNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMRQEDAEDIQKKIMSAKFDFNDFLKQTRAVAQMGSMSRVLGMIPGMGKVTPAQIREAEKSLKIMEGMIEAMTPEEREKPELLAESPARRKRVAQDSGKTEQQVNQLVAQLFQMRVRMKNLMGVMEGGSVPALSNLQEALKSEQKAPPGTARRKRRSQSRKQFAESTSSMPSPRGFGSK 568
MEA ++ + T SH + A ST + C++ SS S LS S+ NSFTR W ++S + R G V+RAEMFGQLTSGLE+AWNKLKGEE+LTKENIVEPMRDIRRALLEADVSLPVVRRF+QSVSE+AVG G+ RGVKPDQQLVK V +ELVKLMGGEVSEL FAKS PTVILLAGLQGVGKTTVSAKLA+YLKKQGKSCMLIAGDVYRPAAIDQL+ILGKQVDVPVY+ GTDVKPAEIAR+GL EAKKKNVDVVIMDTAGRLQIDK MMDELK+VKR LNPTEVLLVVDAMTGQEAAALVTTFNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMRQEDAED+QKKIMSAKFDFNDFLKQTRAVA+MG+MSRV+GM+PGMGKVTPAQIREAEKSLKIME MI+ MTPEERE+PELLAESPARRKR+AQ+SGKTEQQV+QLVAQLFQMRVRMKNLMGVMEGGS+PALSNL+EALKSEQ+APPGTARRKRRS+ RKQFA+S S+ PSPRGFG+K
Sbjct: 1 MEA--TASFTSTMASHHFFPLSKATLSTSKLNPTCNSSSSWIGSTHSLSFSSRNSFTRDTWRVINSKNVVTIRREMSG-VIRAEMFGQLTSGLENAWNKLKGEEVLTKENIVEPMRDIRRALLEADVSLPVVRRFVQSVSEEAVGTGLIRGVKPDQQLVKTVRDELVKLMGGEVSELVFAKSKPTVILLAGLQGVGKTTVSAKLALYLKKQGKSCMLIAGDVYRPAAIDQLVILGKQVDVPVYAAGTDVKPAEIARQGLQEAKKKNVDVVIMDTAGRLQIDKTMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMRQEDAEDLQKKIMSAKFDFNDFLKQTRAVARMGTMSRVIGMMPGMGKVTPAQIREAEKSLKIMESMIDVMTPEEREQPELLAESPARRKRIAQESGKTEQQVSQLVAQLFQMRVRMKNLMGVMEGGSIPALSNLEEALKSEQQAPPGTARRKRRSEPRKQFADSGSARPSPRGFGAK 568
BLAST of XM_017403496.1 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A1U8EGH6 ((Signal recognition particle protein {ECO:0000313|EMBL:PHT71627.1}))
HSP 1 Score: 940.643 bits (2430), Expect = 0.000e+0
Identity = 475/573 (82.90%), Postives = 516/573 (90.05%), Query Frame = 0
Match: A0A1U8EGH6 ((Signal recognition particle protein {ECO:0000313|EMBL:PHT71627.1}))
HSP 1 Score: 940.643 bits (2430), Expect = 0.000e+0
Identity = 475/573 (82.90%), Postives = 516/573 (90.05%), Query Frame = 0
Query: 1 MEALHISAISHTYKSHQTPSFNSARTSTPH---IC--SAYSSSTHSRSLLSHSTYNSFTRQLWGFVHSSSTDRKRDLRRGLVVRAEMFGQLTSGLESAWNKLKGEEILTKENIVEPMRDIRRALLEADVSLPVVRRFIQSVSEQAVGVGVTRGVKPDQQLVKIVSEELVKLMGGEVSELSFAKSGPTVILLAGLQGVGKTTVSAKLAVYLKKQGKSCMLIAGDVYRPAAIDQLLILGKQVDVPVYSMGTDVKPAEIARKGLLEAKKKNVDVVIMDTAGRLQIDKDMMDELKEVKRELNPTEVLLVVDAMTGQEAAALVTTFNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMRQEDAEDIQKKIMSAKFDFNDFLKQTRAVAQMGSMSRVLGMIPGMGKVTPAQIREAEKSLKIMEGMIEAMTPEEREKPELLAESPARRKRVAQDSGKTEQQVNQLVAQLFQMRVRMKNLMGVMEGGSVPALSNLQEALKSEQKAPPGTARRKRRSQSRKQFAESTSSMPSPRGFGSK 568
MEA +++S T SH + A ST IC S+++ S HS LS ++ SFTR W ++S + R RG V++AEMFGQLTSGLE+AWNKLKGEE+LTKENIVEPMRDIRRALLEADVSLPVVRRF+QSVSE+AVG G+ RGVKPDQQLVKIV +ELVKLMGGEVSEL +AKSGPT+ILLAGLQGVGKTTVSAKLA+YLKKQGKSCMLIAGDVYRPAAIDQL+ILG+QVDVPVY+ GTDVKPAEIAR+GL EAK KNVDVVIMDTAGRLQIDK MMDELKEVKR LNPTEVLLVVDAMTGQEAAALVTTFNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMRQEDAE +QKKIMSAKFDFNDFLKQTRAVA+MG+MSRV+GMIPGMGKVTPAQ+REAEKSLKIME MIE MTPEERE+PELLAESPARRKRVAQ+SGKTEQQV+QLVAQLFQMRVRMKNLMGVMEGGS+PALSNL+EALKSEQKAPPGTARRKRRS+ RKQFA+S S+ PSPRGFG+K
Sbjct: 1 MEA--TASLSSTMTSHHFFPLSKATFSTSKVNSICNSSSWTGSAHS---LSFNSRISFTRDTWRMINSRNVVIPRRDMRG-VIKAEMFGQLTSGLETAWNKLKGEEVLTKENIVEPMRDIRRALLEADVSLPVVRRFVQSVSEEAVGTGLIRGVKPDQQLVKIVRDELVKLMGGEVSELVYAKSGPTIILLAGLQGVGKTTVSAKLALYLKKQGKSCMLIAGDVYRPAAIDQLVILGEQVDVPVYAAGTDVKPAEIARQGLQEAKTKNVDVVIMDTAGRLQIDKAMMDELKEVKRVLNPTEVLLVVDAMTGQEAAALVTTFNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMRQEDAEALQKKIMSAKFDFNDFLKQTRAVARMGTMSRVIGMIPGMGKVTPAQVREAEKSLKIMESMIEVMTPEEREQPELLAESPARRKRVAQESGKTEQQVSQLVAQLFQMRVRMKNLMGVMEGGSIPALSNLEEALKSEQKAPPGTARRKRRSEPRKQFADSGSARPSPRGFGAK 567
BLAST of XM_017403496.1 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A2G2YPF4 ((signal recognition particle 54 kDa protein, chloroplastic {ECO:0000313|RefSeq:XP_016542994.1}))
HSP 1 Score: 940.643 bits (2430), Expect = 0.000e+0
Identity = 475/573 (82.90%), Postives = 516/573 (90.05%), Query Frame = 0
Match: A0A2G2YPF4 ((signal recognition particle 54 kDa protein, chloroplastic {ECO:0000313|RefSeq:XP_016542994.1}))
HSP 1 Score: 940.643 bits (2430), Expect = 0.000e+0
Identity = 475/573 (82.90%), Postives = 516/573 (90.05%), Query Frame = 0
Query: 1 MEALHISAISHTYKSHQTPSFNSARTSTPH---IC--SAYSSSTHSRSLLSHSTYNSFTRQLWGFVHSSSTDRKRDLRRGLVVRAEMFGQLTSGLESAWNKLKGEEILTKENIVEPMRDIRRALLEADVSLPVVRRFIQSVSEQAVGVGVTRGVKPDQQLVKIVSEELVKLMGGEVSELSFAKSGPTVILLAGLQGVGKTTVSAKLAVYLKKQGKSCMLIAGDVYRPAAIDQLLILGKQVDVPVYSMGTDVKPAEIARKGLLEAKKKNVDVVIMDTAGRLQIDKDMMDELKEVKRELNPTEVLLVVDAMTGQEAAALVTTFNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMRQEDAEDIQKKIMSAKFDFNDFLKQTRAVAQMGSMSRVLGMIPGMGKVTPAQIREAEKSLKIMEGMIEAMTPEEREKPELLAESPARRKRVAQDSGKTEQQVNQLVAQLFQMRVRMKNLMGVMEGGSVPALSNLQEALKSEQKAPPGTARRKRRSQSRKQFAESTSSMPSPRGFGSK 568
MEA +++S T SH + A ST IC S+++ S HS LS ++ SFTR W ++S + R RG V++AEMFGQLTSGLE+AWNKLKGEE+LTKENIVEPMRDIRRALLEADVSLPVVRRF+QSVSE+AVG G+ RGVKPDQQLVKIV +ELVKLMGGEVSEL +AKSGPT+ILLAGLQGVGKTTVSAKLA+YLKKQGKSCMLIAGDVYRPAAIDQL+ILG+QVDVPVY+ GTDVKPAEIAR+GL EAK KNVDVVIMDTAGRLQIDK MMDELKEVKR LNPTEVLLVVDAMTGQEAAALVTTFNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMRQEDAE +QKKIMSAKFDFNDFLKQTRAVA+MG+MSRV+GMIPGMGKVTPAQ+REAEKSLKIME MIE MTPEERE+PELLAESPARRKRVAQ+SGKTEQQV+QLVAQLFQMRVRMKNLMGVMEGGS+PALSNL+EALKSEQKAPPGTARRKRRS+ RKQFA+S S+ PSPRGFG+K
Sbjct: 1 MEA--TASLSSTMTSHHFFPLSKATFSTSKVNSICNSSSWTGSAHS---LSFNSRISFTRDTWRMINSRNVVIPRRDMRG-VIKAEMFGQLTSGLETAWNKLKGEEVLTKENIVEPMRDIRRALLEADVSLPVVRRFVQSVSEEAVGTGLIRGVKPDQQLVKIVRDELVKLMGGEVSELVYAKSGPTIILLAGLQGVGKTTVSAKLALYLKKQGKSCMLIAGDVYRPAAIDQLVILGEQVDVPVYAAGTDVKPAEIARQGLQEAKTKNVDVVIMDTAGRLQIDKAMMDELKEVKRVLNPTEVLLVVDAMTGQEAAALVTTFNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMRQEDAEALQKKIMSAKFDFNDFLKQTRAVARMGTMSRVIGMIPGMGKVTPAQVREAEKSLKIMESMIEVMTPEEREQPELLAESPARRKRVAQESGKTEQQVSQLVAQLFQMRVRMKNLMGVMEGGSIPALSNLEEALKSEQKAPPGTARRKRRSEPRKQFADSGSARPSPRGFGAK 567
BLAST of XM_017403496.1 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A3Q7HZE0 (SRP54 domain-containing protein {ECO:0000259|PROSITE:PS00300})
HSP 1 Score: 940.258 bits (2429), Expect = 0.000e+0
Identity = 473/573 (82.55%), Postives = 515/573 (89.88%), Query Frame = 0
Match: A0A3Q7HZE0 (SRP54 domain-containing protein {ECO:0000259|PROSITE:PS00300})
HSP 1 Score: 940.258 bits (2429), Expect = 0.000e+0
Identity = 473/573 (82.55%), Postives = 515/573 (89.88%), Query Frame = 0
Query: 1 MEALHISAISHTYKSHQTPSFNSARTSTPHI---CSAYSSSTHSRSLLSHSTYNSFTRQLWGFVHSSSTDRKRDLRRGL--VVRAEMFGQLTSGLESAWNKLKGEEILTKENIVEPMRDIRRALLEADVSLPVVRRFIQSVSEQAVGVGVTRGVKPDQQLVKIVSEELVKLMGGEVSELSFAKSGPTVILLAGLQGVGKTTVSAKLAVYLKKQGKSCMLIAGDVYRPAAIDQLLILGKQVDVPVYSMGTDVKPAEIARKGLLEAKKKNVDVVIMDTAGRLQIDKDMMDELKEVKRELNPTEVLLVVDAMTGQEAAALVTTFNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMRQEDAEDIQKKIMSAKFDFNDFLKQTRAVAQMGSMSRVLGMIPGMGKVTPAQIREAEKSLKIMEGMIEAMTPEEREKPELLAESPARRKRVAQDSGKTEQQVNQLVAQLFQMRVRMKNLMGVMEGGSVPALSNLQEALKSEQKAPPGTARRKRRSQSRKQFAESTSSMPSPRGFGSK 568
MEA ++ + T SH + A S+ + C++ SS S LS S+ NSFTR W ++S K +RR + V+RAEMFGQLTSGLE+AWNKLKGEE+LTKENIVEPMRDIRRALLEADVSLPVVRRF+QSVSE+AVG G+ RGVKPDQQLVK V +ELVKLMGGEVSEL FAKS PTVILLAGLQGVGKTTVSAKLA+YLKKQGKSCMLIAGDVYRPAAIDQL+ILGKQVDVPVY+ GTDVKPAEIAR+GL EAKKKNVDVVIMDTAGRLQIDK MMDELK+VKR LNPTEVLLVVDAMTGQEAAALVTTFNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMRQEDAED+QKKIMSAKFDFNDFLKQTRAVA+MG+MSRV+GM+PGMGKVTPAQIREAEKSLKIME MI+ MTPEERE+PELLAESPARRKR+AQ+SGKTEQQV+QLVAQLFQMRVRMKNLMGVMEGGS+PALSNL+EALKSEQ+APPGTARRKRRS+ RKQFA+S S+ PSPRGFG+K
Sbjct: 1 MEA--TASFTSTMASHHFFPLSKATLSSSKLNPTCNSSSSWIGSTHSLSFSSRNSFTRDTWRVINS-----KNVVRREMSGVIRAEMFGQLTSGLENAWNKLKGEEVLTKENIVEPMRDIRRALLEADVSLPVVRRFVQSVSEEAVGTGLIRGVKPDQQLVKTVRDELVKLMGGEVSELVFAKSKPTVILLAGLQGVGKTTVSAKLALYLKKQGKSCMLIAGDVYRPAAIDQLVILGKQVDVPVYAAGTDVKPAEIARQGLQEAKKKNVDVVIMDTAGRLQIDKTMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMRQEDAEDLQKKIMSAKFDFNDFLKQTRAVARMGTMSRVIGMMPGMGKVTPAQIREAEKSLKIMESMIDVMTPEEREQPELLAESPARRKRIAQESGKTEQQVSQLVAQLFQMRVRMKNLMGVMEGGSIPALSNLEEALKSEQQAPPGTARRKRRSEPRKQFADSGSARPSPRGFGAK 566
BLAST of XM_017403496.1 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: M1AHD8 ((Signal recognition particle protein {ECO:0000313|EnsemblPlants:PGSC0003DMT400022884}))
HSP 1 Score: 938.717 bits (2425), Expect = 0.000e+0
Identity = 470/557 (84.38%), Postives = 505/557 (90.66%), Query Frame = 0
Match: M1AHD8 ((Signal recognition particle protein {ECO:0000313|EnsemblPlants:PGSC0003DMT400022884}))
HSP 1 Score: 938.717 bits (2425), Expect = 0.000e+0
Identity = 470/557 (84.38%), Postives = 505/557 (90.66%), Query Frame = 0
Query: 15 SHQTPSFNSARTSTPHI---CSAYSSSTHSRSLLSHSTYNSFTRQLWGFVHSSSTDRKRDLRRGLVVRAEMFGQLTSGLESAWNKLKGEEILTKENIVEPMRDIRRALLEADVSLPVVRRFIQSVSEQAVGVGVTRGVKPDQQLVKIVSEELVKLMGGEVSELSFAKSGPTVILLAGLQGVGKTTVSAKLAVYLKKQGKSCMLIAGDVYRPAAIDQLLILGKQVDVPVYSMGTDVKPAEIARKGLLEAKKKNVDVVIMDTAGRLQIDKDMMDELKEVKRELNPTEVLLVVDAMTGQEAAALVTTFNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMRQEDAEDIQKKIMSAKFDFNDFLKQTRAVAQMGSMSRVLGMIPGMGKVTPAQIREAEKSLKIMEGMIEAMTPEEREKPELLAESPARRKRVAQDSGKTEQQVNQLVAQLFQMRVRMKNLMGVMEGGSVPALSNLQEALKSEQKAPPGTARRKRRSQSRKQFAESTSSMPSPRGFGSK 568
SH + A ST + C++ SS LS S+ NSFTR W ++S + R RG V+RAEMFGQLTSGLE+AWNKLKGEE+LTKENIVEPMRDIRRALLEADVSLPVVRRF+QSVSE+AVG G+ RGVKPDQQLVKIV +ELVKLMGGEVSEL FAKS PTVILLAGLQGVGKTTVSAKLA+YLKKQGKSCMLIAGDVYRPAAIDQL+ILGKQVDVPVY+ GTDVKPAEIAR+GL EAKKKNVDVVIMDTAGRLQIDK MMDELK+VKR LNPTEVLLVVDAMTGQEAAALVTTFNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMRQEDAED+QKKIMSAKFDFNDFLKQTRAVA+MG+MSRV+GM+PGMGKVTPAQIREAEKSL IME MIE MTPEERE+PELLAESPARRKR+AQ+SGKTEQQV+QLVAQLFQMRVRMKNLMGVMEGGS+PALSNL+EALKSEQ+APPGTARRKRRS+ RKQFA+S S+ PSPRGFG K
Sbjct: 3 SHHFFPLSKATLSTSKLNPTCNSSSSWIGCTHSLSFSSRNSFTRDTWRVINSKNVVTIRRETRG-VIRAEMFGQLTSGLENAWNKLKGEEVLTKENIVEPMRDIRRALLEADVSLPVVRRFVQSVSEEAVGTGLIRGVKPDQQLVKIVRDELVKLMGGEVSELVFAKSKPTVILLAGLQGVGKTTVSAKLALYLKKQGKSCMLIAGDVYRPAAIDQLVILGKQVDVPVYAAGTDVKPAEIARQGLQEAKKKNVDVVIMDTAGRLQIDKTMMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMRQEDAEDLQKKIMSAKFDFNDFLKQTRAVARMGTMSRVIGMMPGMGKVTPAQIREAEKSLLIMESMIEVMTPEEREQPELLAESPARRKRIAQESGKTEQQVSQLVAQLFQMRVRMKNLMGVMEGGSIPALSNLEEALKSEQQAPPGTARRKRRSEPRKQFADSGSARPSPRGFGGK 558
BLAST of XM_017403496.1 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A068V3Q8 (SRP54 domain-containing protein {ECO:0000259|PROSITE:PS00300})
HSP 1 Score: 937.562 bits (2422), Expect = 0.000e+0
Identity = 474/570 (83.16%), Postives = 521/570 (91.40%), Query Frame = 0
Match: A0A068V3Q8 (SRP54 domain-containing protein {ECO:0000259|PROSITE:PS00300})
HSP 1 Score: 937.562 bits (2422), Expect = 0.000e+0
Identity = 474/570 (83.16%), Postives = 521/570 (91.40%), Query Frame = 0
Query: 5 HIS-AISHTYKSHQTPSFNSARTSTPHICSAYSSSTHSRSLLSHSTYNSFTRQLWGFVHSSS-----TDRKRDLRRGLVVRAEMFGQLTSGLESAWNKLKGEEILTKENIVEPMRDIRRALLEADVSLPVVRRFIQSVSEQAVGVGVTRGVKPDQQLVKIVSEELVKLMGGEVSELSFAKSGPTVILLAGLQGVGKTTVSAKLAVYLKKQGKSCMLIAGDVYRPAAIDQLLILGKQVDVPVYSMGTDVKPAEIARKGLLEAKKKNVDVVIMDTAGRLQIDKDMMDELKEVKRELNPTEVLLVVDAMTGQEAAALVTTFNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMRQEDAEDIQKKIMSAKFDFNDFLKQTRAVAQMGSMSRVLGMIPGMGKVTPAQIREAEKSLKIMEGMIEAMTPEEREKPELLAESPARRKRVAQDSGKTEQQVNQLVAQLFQMRVRMKNLMGVMEGGSVPALSNLQEALKSEQKAPPGTARRKRRSQSRKQFAESTSSMPSPRGFGSK 568
H+S A+ + +H + S R++ P S++ STHS LS S+ N FTR+LWG +HSSS T ++ GL++RAEMFGQLTSGLE+AWNKLKGEE+LTKENI EPMRDIRRALLEADVSLPVVRRF+Q+VS+QAVG GV RGV+PDQQLVKIV++ELVKLMGGEVSEL FAK+GPTVILLAGLQGVGKTTVSAKLA+YLKKQGKSCMLIAGDVYRPAAIDQL+ILG+QV VPVYS GT++KPAEIARKGL EA+KKNV+VVIMDTAGR QIDK MMDELKEVKR LNPTEVLLVVDAMTGQEAAALVTTFNLEIGITGAIL+KLDGDSRGGAALSVKEVSGKPIKLVGRGER+EDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMRQEDAE++QKKIMSAKFDFNDFLKQTRAVAQMGSMSRV+GMIPGMGKVTPAQIREAEK+LKIME MIEAMTPEEREKPELLAESPARRKRVAQDSGKTEQQV+QLVAQLFQMRVRMKNLMGVMEGGS+PALSNL+EA+K+EQKAPPGTARRKRRS+SR+QFA+S SS P PRGFG+K
Sbjct: 14 HLSTALPLSKTTHLSNSKFLRRSTQPCSSSSFIGSTHS---LSFSSRNPFTRELWGVIHSSSMNAAVTGTRKMAGSGLIIRAEMFGQLTSGLETAWNKLKGEEVLTKENIAEPMRDIRRALLEADVSLPVVRRFVQAVSDQAVGTGVIRGVRPDQQLVKIVNDELVKLMGGEVSELVFAKTGPTVILLAGLQGVGKTTVSAKLALYLKKQGKSCMLIAGDVYRPAAIDQLVILGEQVGVPVYSAGTEIKPAEIARKGLEEARKKNVNVVIMDTAGRFQIDKAMMDELKEVKRVLNPTEVLLVVDAMTGQEAAALVTTFNLEIGITGAILSKLDGDSRGGAALSVKEVSGKPIKLVGRGERVEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMRQEDAEELQKKIMSAKFDFNDFLKQTRAVAQMGSMSRVIGMIPGMGKVTPAQIREAEKNLKIMEAMIEAMTPEEREKPELLAESPARRKRVAQDSGKTEQQVSQLVAQLFQMRVRMKNLMGVMEGGSIPALSNLEEAMKAEQKAPPGTARRKRRSESRRQFADSASSRPGPRGFGAK 580
BLAST of XM_017403496.1 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A2N9GLV3 (SRP54 domain-containing protein {ECO:0000259|PROSITE:PS00300})
HSP 1 Score: 935.636 bits (2417), Expect = 0.000e+0
Identity = 456/514 (88.72%), Postives = 494/514 (96.11%), Query Frame = 0
Match: A0A2N9GLV3 (SRP54 domain-containing protein {ECO:0000259|PROSITE:PS00300})
HSP 1 Score: 935.636 bits (2417), Expect = 0.000e+0
Identity = 456/514 (88.72%), Postives = 494/514 (96.11%), Query Frame = 0
Query: 53 FTRQLWGFVHSSSTDRKRDLRRGLVVRAEMFGQLTSGLESAWNKLKGEEILTKENIVEPMRDIRRALLEADVSLPVVRRFIQSVSEQAVGVGVTRGVKPDQQLVKIVSEELVKLMGGEVSELSFAKSGPTVILLAGLQGVGKTTVSAKLAVYLKKQGKSCMLIAGDVYRPAAIDQLLILGKQVDVPVYSMGTDVKPAEIARKGLLEAKKKNVDVVIMDTAGRLQIDKDMMDELKEVKRELNPTEVLLVVDAMTGQEAAALVTTFNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMRQEDAEDIQKKIMSAKFDFNDFLKQTRAVAQMGSMSRVLGMIPGMGKVTPAQIREAEKSLKIMEGMIEAMTPEEREKPELLAESPARRKRVAQDSGKTEQQVNQLVAQLFQMRVRMKNLMGVMEGGSVPALSNLQEALKSEQKAPPGTARRKRRSQSRKQFAESTSSMPSPRGFG 566
FTR+LWG V+S S ++ RRGL+VRAEMFGQLTSGLE+AWNKLKGEE+LTKENIVEPMRDIRRALLEADVSLPVVRRF+Q+VSEQAVGVG+ RGV+PDQQLVKIV +ELVKLMGGEVSEL FAKSGPTVILLAGLQGVGKTTV AKLA+YLKKQGKSCML+AGDVYRPAAIDQL+ILG+QVDVPVY+ GT+VKP+EIA++GL EAKKKN+DVVIMDTAGRLQIDK MMDELKEVKR LNPTEVLLVVDAMTGQEAAALVT+FNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMRQEDAED+QKKIMSAKFDFNDFLKQT+AVA+MGSM+RVLGMIPGMGKVTPAQIREAEKSLKIMEGMIEAMTPEEREKPELLAESP RRKRVAQ+SGKTEQQVNQLVAQLFQMRVRMKNLMGVMEGGS+PALSNL+EA+K+EQKAPPGTARRKR+S+SRK+F ++ S+ SPRGFG
Sbjct: 55 FTRELWGLVNSKSVTVRKRGRRGLIVRAEMFGQLTSGLEAAWNKLKGEEVLTKENIVEPMRDIRRALLEADVSLPVVRRFVQAVSEQAVGVGLIRGVRPDQQLVKIVRDELVKLMGGEVSELVFAKSGPTVILLAGLQGVGKTTVCAKLALYLKKQGKSCMLVAGDVYRPAAIDQLVILGEQVDVPVYTAGTEVKPSEIAKQGLQEAKKKNMDVVIMDTAGRLQIDKGMMDELKEVKRSLNPTEVLLVVDAMTGQEAAALVTSFNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMRQEDAEDLQKKIMSAKFDFNDFLKQTQAVARMGSMTRVLGMIPGMGKVTPAQIREAEKSLKIMEGMIEAMTPEEREKPELLAESPVRRKRVAQESGKTEQQVNQLVAQLFQMRVRMKNLMGVMEGGSIPALSNLEEAMKNEQKAPPGTARRKRKSESRKKFIDAISTRSSPRGFG 568
BLAST of XM_017403496.1 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A6P6T0F0 ((signal recognition particle 54 kDa protein, chloroplastic-like isoform X1 {ECO:0000313|RefSeq:XP_027071522.1}))
HSP 1 Score: 935.25 bits (2416), Expect = 0.000e+0
Identity = 474/570 (83.16%), Postives = 521/570 (91.40%), Query Frame = 0
Match: A0A6P6T0F0 ((signal recognition particle 54 kDa protein, chloroplastic-like isoform X1 {ECO:0000313|RefSeq:XP_027071522.1}))
HSP 1 Score: 935.25 bits (2416), Expect = 0.000e+0
Identity = 474/570 (83.16%), Postives = 521/570 (91.40%), Query Frame = 0
Query: 5 HIS-AISHTYKSHQTPSFNSARTSTPHICSAYSSSTHSRSLLSHSTYNSFTRQLWGFVHSSS-----TDRKRDLRRGLVVRAEMFGQLTSGLESAWNKLKGEEILTKENIVEPMRDIRRALLEADVSLPVVRRFIQSVSEQAVGVGVTRGVKPDQQLVKIVSEELVKLMGGEVSELSFAKSGPTVILLAGLQGVGKTTVSAKLAVYLKKQGKSCMLIAGDVYRPAAIDQLLILGKQVDVPVYSMGTDVKPAEIARKGLLEAKKKNVDVVIMDTAGRLQIDKDMMDELKEVKRELNPTEVLLVVDAMTGQEAAALVTTFNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMRQEDAEDIQKKIMSAKFDFNDFLKQTRAVAQMGSMSRVLGMIPGMGKVTPAQIREAEKSLKIMEGMIEAMTPEEREKPELLAESPARRKRVAQDSGKTEQQVNQLVAQLFQMRVRMKNLMGVMEGGSVPALSNLQEALKSEQKAPPGTARRKRRSQSRKQFAESTSSMPSPRGFGSK 568
H+S A+ + +H + S R++ P S++ STHS LS ++ N FTR+LWG +HSSS T ++ GL++RAEMFGQLTSGLE+AWNKLKGEE+LTKENI EPMRDIRRALLEADVSLPVVRRF+Q+VS+QAVG GV RGV+PDQQLVKIV++ELVKLMGGEVSEL FAK+GPTVILLAGLQGVGKTTVSAKLA+YLKKQGKSCMLIAGDVYRPAAIDQL+ILG+QV VPVYS GT++KPAEIARKGL EA+KKNV+VVIMDTAGR QIDK MMDELKEVKR LNPTEVLLVVDAMTGQEAAALVTTFNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGER+EDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMRQEDAE++QKKIMSAKFDFNDFLKQTRAVAQMGSMSRV+GMIPGMGKVTPAQIREAEK+LKIME MIEAMTPEEREKPELLAESPARRKRVAQDSGKTEQQV+QLVAQLFQMRVRMKNLMGVMEGGS+PALSNL+EA+K+EQKAPPGTARRKRRS+SR+QFA+S SS P PRGFG+K
Sbjct: 14 HLSTALPLSKTTHLSNSKFLRRSTQPCSSSSFIGSTHS---LSFASRNPFTRELWGVIHSSSMNAAVTGTRKMAGGGLIIRAEMFGQLTSGLETAWNKLKGEEVLTKENIAEPMRDIRRALLEADVSLPVVRRFVQAVSDQAVGTGVIRGVRPDQQLVKIVNDELVKLMGGEVSELVFAKTGPTVILLAGLQGVGKTTVSAKLALYLKKQGKSCMLIAGDVYRPAAIDQLVILGEQVGVPVYSAGTEIKPAEIARKGLEEARKKNVNVVIMDTAGRFQIDKVMMDELKEVKRVLNPTEVLLVVDAMTGQEAAALVTTFNLEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERIEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMRQEDAEELQKKIMSAKFDFNDFLKQTRAVAQMGSMSRVIGMIPGMGKVTPAQIREAEKNLKIMEAMIEAMTPEEREKPELLAESPARRKRVAQDSGKTEQQVSQLVAQLFQMRVRMKNLMGVMEGGSIPALSNLEEAMKAEQKAPPGTARRKRRSESRRQFADSASSRPGPRGFGAK 580
| Match Name | Stats | Description |
|---|---|---|
| A0A6S7PE84 | E-Value: 0.000e+0, PID: 83.92 | SRP54 domain-containing protein {ECO:0000259|PROSI... [more] |
| A0A5J4ZIW3 | E-Value: 0.000e+0, PID: 83.77 | SRP54 domain-containing protein {ECO:0000259|PROSI... [more] |
| A0A6N2B070 | E-Value: 0.000e+0, PID: 82.84 | SRP54 domain-containing protein {ECO:0000259|PROSI... [more] |
| A0A1U8EGH6 | E-Value: 0.000e+0, PID: 82.90 | (Signal recognition particle protein {ECO:0000313|... [more] |
| A0A2G2YPF4 | E-Value: 0.000e+0, PID: 82.90 | (signal recognition particle 54 kDa protein, chlor... [more] |
| A0A3Q7HZE0 | E-Value: 0.000e+0, PID: 82.55 | SRP54 domain-containing protein {ECO:0000259|PROSI... [more] |
| M1AHD8 | E-Value: 0.000e+0, PID: 84.38 | (Signal recognition particle protein {ECO:0000313|... [more] |
| A0A068V3Q8 | E-Value: 0.000e+0, PID: 83.16 | SRP54 domain-containing protein {ECO:0000259|PROSI... [more] |
| A0A2N9GLV3 | E-Value: 0.000e+0, PID: 88.72 | SRP54 domain-containing protein {ECO:0000259|PROSI... [more] |
| A0A6P6T0F0 | E-Value: 0.000e+0, PID: 83.16 | (signal recognition particle 54 kDa protein, chlor... [more] |
Analysis:
| 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 | |
The RefSeq genome records for Daucus carota subsp. sativus were annotated by the NCBI Eukaryotic Genome Annotation Pipeline, an automated pipeline that annotates genes, transcripts and proteins on draft and finished genome assemblies. This report presents statistics on the annotation products, the input data used in the pipeline and intermediate alignment results. View the full report at https://www.ncbi.nlm.nih.gov/genome/annotation_euk/Daucus_carota_subsp._sativus/100/ Data from this analysis can be viewed in JBrowse here. | |
This analysis is a blastp search of all of the NCBI Daucus carota subsp. sativus Annotation Release 100 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 DCAR gene predictions from DCAR V1.0 Gene Prediction. |