MAKVYTMNEPPTDRPVRVYADGIYDLFHFGHARSLEQAKKSFPNTYLLVG
CCNDEVTHKFKGKTVMTDTERYESLRHCKWVDEVIPDAPWVVTIEFLDKH
RIDYVAHDSLPYADASGAGKDVYEFVKSIGKFKETKRTEGISTSDVIMRI
VKDYNEYVIRNLDRGYSRKDLGVSYVKEKRLRVNMGLKKLREEVKKQQEK
VEEKMQTVAKTRNMWVDNADRMVAGFLEMFEEGCHKMGTAIRDRIQEQLM
VKDKDDFDDDDDEDDDDYYDASTDEDYDKGYDKRDIDVKE
| Relationships |
|---|
| The polypeptide, XM_017375082.1, derives from mRNA, XM_017375082.1. |
Analysis Date: 2022-01-09
Analysis Name: NCBI peptide blastp to SwissProt and TrEMBL without DCAR
Total hits: 10
Match: A0A6P6WZX3 ((choline-phosphate cytidylyltransferase 1-like {ECO:0000313|RefSeq:XP_027119062.1}))
HSP 1 Score: 472.626 bits (1215), Expect = 1.248e-167
Identity = 221/251 (88.05%), Postives = 238/251 (94.82%), Query Frame = 0
Query: 3 KVYTMNEPPTDRPVRVYADGIYDLFHFGHARSLEQAKKSFPNTYLLVGCCNDEVTHKFKGKTVMTDTERYESLRHCKWVDEVIPDAPWVVTIEFLDKHRIDYVAHDSLPYADASGAGKDVYEFVKSIGKFKETKRTEGISTSDVIMRIVKDYNEYVIRNLDRGYSRKDLGVSYVKEKRLRVNMGLKKLREEVKKQQEKVEEKMQTVAKTRNMWVDNADRMVAGFLEMFEEGCHKMGTAIRDRIQEQLMVKD 253
K MN+PPTDRPVRVYADGIYDLFHFGHARSLEQAKKSFPNTYLLVGCCNDEVTHK+KGKTVMTD ERYESLRHC+WVDEVIPDAPWV T EFLDKH+ID+VAHDSLPYADASGA DVYEFVK+ GKFKETKRTEGISTSD+IMRIVKDYNEYV+RNLDRGYSRK+LGVSYVKEKRLRVN GL+KL+E+VKKQQEKVEEKMQTVAK RN+WVDNADR+VAGFLEMFEEGCH+MGTAIRDRIQEQ+ K+
Sbjct: 7 KPIPMNDPPTDRPVRVYADGIYDLFHFGHARSLEQAKKSFPNTYLLVGCCNDEVTHKYKGKTVMTDAERYESLRHCRWVDEVIPDAPWVTTQEFLDKHQIDFVAHDSLPYADASGAANDVYEFVKAAGKFKETKRTEGISTSDLIMRIVKDYNEYVMRNLDRGYSRKELGVSYVKEKRLRVNRGLRKLQEKVKKQQEKVEEKMQTVAKHRNIWVDNADRLVAGFLEMFEEGCHRMGTAIRDRIQEQIRTKN 257
Match: A0A6P6WN36 ((choline-phosphate cytidylyltransferase 1-like {ECO:0000313|RefSeq:XP_027116853.1}))
HSP 1 Score: 472.241 bits (1214), Expect = 1.715e-167
Identity = 221/251 (88.05%), Postives = 238/251 (94.82%), Query Frame = 0
Query: 3 KVYTMNEPPTDRPVRVYADGIYDLFHFGHARSLEQAKKSFPNTYLLVGCCNDEVTHKFKGKTVMTDTERYESLRHCKWVDEVIPDAPWVVTIEFLDKHRIDYVAHDSLPYADASGAGKDVYEFVKSIGKFKETKRTEGISTSDVIMRIVKDYNEYVIRNLDRGYSRKDLGVSYVKEKRLRVNMGLKKLREEVKKQQEKVEEKMQTVAKTRNMWVDNADRMVAGFLEMFEEGCHKMGTAIRDRIQEQLMVKD 253
K MN+PPTDRPVRVYADGIYDLFHFGHARSLEQAKKSFPNTYLLVGCCNDEVTHK+KGKTVMTD ERYESLRHC+WVDEVIPDAPWV T EFLDKH+ID+VAHDSLPYADASGA DVYEFVK+ GKFKETKRTEGISTSD+IMRIVKDYNEYV+RNLDRGYSRK+LGVSYVKEKRLRVN GL+KL+E+VKKQQEKVEEKMQTVAK RN+WVDNADR+VAGFLEMFEEGCH+MGTAIRDRIQEQ+ K+
Sbjct: 7 KPIPMNDPPTDRPVRVYADGIYDLFHFGHARSLEQAKKSFPNTYLLVGCCNDEVTHKYKGKTVMTDVERYESLRHCRWVDEVIPDAPWVTTQEFLDKHQIDFVAHDSLPYADASGAANDVYEFVKAAGKFKETKRTEGISTSDLIMRIVKDYNEYVMRNLDRGYSRKELGVSYVKEKRLRVNRGLRKLQEKVKKQQEKVEEKMQTVAKHRNIWVDNADRLVAGFLEMFEEGCHRMGTAIRDRIQEQIRTKN 257
Match: A0A068URW1 (CTP_transf_like domain-containing protein {ECO:0000259|Pfam:PF01467})
HSP 1 Score: 472.241 bits (1214), Expect = 1.715e-167
Identity = 221/251 (88.05%), Postives = 238/251 (94.82%), Query Frame = 0
Query: 3 KVYTMNEPPTDRPVRVYADGIYDLFHFGHARSLEQAKKSFPNTYLLVGCCNDEVTHKFKGKTVMTDTERYESLRHCKWVDEVIPDAPWVVTIEFLDKHRIDYVAHDSLPYADASGAGKDVYEFVKSIGKFKETKRTEGISTSDVIMRIVKDYNEYVIRNLDRGYSRKDLGVSYVKEKRLRVNMGLKKLREEVKKQQEKVEEKMQTVAKTRNMWVDNADRMVAGFLEMFEEGCHKMGTAIRDRIQEQLMVKD 253
K MN+PPTDRPVRVYADGIYDLFHFGHARSLEQAKKSFPNTYLLVGCCNDEVTHK+KGKTVMTD ERYESLRHC+WVDEVIPDAPWV T EFLDKH+ID+VAHDSLPYADASGA DVYEFVK+ GKFKETKRTEGISTSD+IMRIVKDYNEYV+RNLDRGYSRK+LGVSYVKEKRLRVN GL+KL+E+VKKQQEKVEEKMQTVAK RN+WVDNADR+VAGFLEMFEEGCH+MGTAIRDRIQEQ+ K+
Sbjct: 7 KPIPMNDPPTDRPVRVYADGIYDLFHFGHARSLEQAKKSFPNTYLLVGCCNDEVTHKYKGKTVMTDVERYESLRHCRWVDEVIPDAPWVTTQEFLDKHQIDFVAHDSLPYADASGAANDVYEFVKAAGKFKETKRTEGISTSDLIMRIVKDYNEYVMRNLDRGYSRKELGVSYVKEKRLRVNRGLRKLQEKVKKQQEKVEEKMQTVAKHRNIWVDNADRLVAGFLEMFEEGCHRMGTAIRDRIQEQIRTKN 257
Match: A0A6S7NHJ4 (CTP_transf_like domain-containing protein {ECO:0000259|Pfam:PF01467})
HSP 1 Score: 472.241 bits (1214), Expect = 2.261e-167
Identity = 224/247 (90.69%), Postives = 236/247 (95.55%), Query Frame = 0
Query: 7 MNEPPTDRPVRVYADGIYDLFHFGHARSLEQAKKSFPNTYLLVGCCNDEVTHKFKGKTVMTDTERYESLRHCKWVDEVIPDAPWVVTIEFLDKHRIDYVAHDSLPYADASGAGKDVYEFVKSIGKFKETKRTEGISTSDVIMRIVKDYNEYVIRNLDRGYSRKDLGVSYVKEKRLRVNMGLKKLREEVKKQQEKVEEKMQTVAKT----RNMWVDNADRMVAGFLEMFEEGCHKMGTAIRDRIQEQL 249
M PPTDRPVRVYADGIYDLFHFGHARSLEQAKKSFPNTYLLVGCCNDEVTH KGKTVMTD ERYESLRHCKWVDEVIPDAPWV+T EF+DKH+IDYVAHDSLPYADASGAGKDVYEFVKSIG+FKETKRT+GISTSD+IMRIVKDYNEYV+RNLDRGYSRKDLGVSYVKEKRLRVNMGLKKLRE+VKKQQEKVEEK+QTVAKT N+WV+NADR+VAGFLEMFEEGCHKMGTAIRDRIQEQL
Sbjct: 11 MLPPPTDRPVRVYADGIYDLFHFGHARSLEQAKKSFPNTYLLVGCCNDEVTHSLKGKTVMTDKERYESLRHCKWVDEVIPDAPWVLTQEFIDKHQIDYVAHDSLPYADASGAGKDVYEFVKSIGRFKETKRTDGISTSDIIMRIVKDYNEYVMRNLDRGYSRKDLGVSYVKEKRLRVNMGLKKLREKVKKQQEKVEEKIQTVAKTAGMNHNLWVENADRLVAGFLEMFEEGCHKMGTAIRDRIQEQL 257
Match: A0A2U1NMS1 ((Phosphorylcholine cytidylyltransferase2 {ECO:0000313|EMBL:PWA74805.1}))
HSP 1 Score: 468.389 bits (1204), Expect = 8.984e-166
Identity = 224/255 (87.84%), Postives = 237/255 (92.94%), Query Frame = 0
Query: 2 AKVYTMNEPPTDRPVRVYADGIYDLFHFGHARSLEQAKKSFPNTYLLVGCCNDEVTHKFKGKTVMTDTERYESLRHCKWVDEVIPDAPWVVTIEFLDKHRIDYVAHDSLPYADASGAGKDVYEFVKSIGKFKETKRTEGISTSDVIMRIVKDYNEYVIRNLDRGYSRKDLGVSYVKEKRLRVNMGLKKLREEVKKQQEKVEEKMQTVAKT----RNMWVDNADRMVAGFLEMFEEGCHKMGTAIRDRIQEQLMVK 252
AK M +PPTDRPVRVYADGIYDLFHFGHARSLEQAKKSFPNTYLLVGCCNDEVTH+ KGKTVMTD ERYESLRHCKWVDEVIPDAPWV+T EF+DKH+IDYVAHDSLPYADASGAG DVYEFVKSIG+FKETKRT+GISTSD+IMRIVKDYNEYV+RNLDRGYSRKDLGVSYVKEKRLRVNMGLKKLRE VKKQQEKVEEK+Q VAKT +WV+NADR+VAGFLEMFEEGCHKMGTAIRDRIQEQL K
Sbjct: 11 AKRNWMVDPPTDRPVRVYADGIYDLFHFGHARSLEQAKKSFPNTYLLVGCCNDEVTHRLKGKTVMTDKERYESLRHCKWVDEVIPDAPWVLTQEFIDKHQIDYVAHDSLPYADASGAGNDVYEFVKSIGRFKETKRTDGISTSDIIMRIVKDYNEYVMRNLDRGYSRKDLGVSYVKEKRLRVNMGLKKLRERVKKQQEKVEEKIQIVAKTAGLNHTLWVENADRLVAGFLEMFEEGCHKMGTAIRDRIQEQLKAK 265
Match: A0A2U1NMR5 ((Phosphorylcholine cytidylyltransferase2 {ECO:0000313|EMBL:PWA74804.1}))
HSP 1 Score: 468.389 bits (1204), Expect = 2.427e-165
Identity = 224/255 (87.84%), Postives = 237/255 (92.94%), Query Frame = 0
Query: 2 AKVYTMNEPPTDRPVRVYADGIYDLFHFGHARSLEQAKKSFPNTYLLVGCCNDEVTHKFKGKTVMTDTERYESLRHCKWVDEVIPDAPWVVTIEFLDKHRIDYVAHDSLPYADASGAGKDVYEFVKSIGKFKETKRTEGISTSDVIMRIVKDYNEYVIRNLDRGYSRKDLGVSYVKEKRLRVNMGLKKLREEVKKQQEKVEEKMQTVAKT----RNMWVDNADRMVAGFLEMFEEGCHKMGTAIRDRIQEQLMVK 252
AK M +PPTDRPVRVYADGIYDLFHFGHARSLEQAKKSFPNTYLLVGCCNDEVTH+ KGKTVMTD ERYESLRHCKWVDEVIPDAPWV+T EF+DKH+IDYVAHDSLPYADASGAG DVYEFVKSIG+FKETKRT+GISTSD+IMRIVKDYNEYV+RNLDRGYSRKDLGVSYVKEKRLRVNMGLKKLRE VKKQQEKVEEK+Q VAKT +WV+NADR+VAGFLEMFEEGCHKMGTAIRDRIQEQL K
Sbjct: 11 AKRNWMVDPPTDRPVRVYADGIYDLFHFGHARSLEQAKKSFPNTYLLVGCCNDEVTHRLKGKTVMTDKERYESLRHCKWVDEVIPDAPWVLTQEFIDKHQIDYVAHDSLPYADASGAGNDVYEFVKSIGRFKETKRTDGISTSDIIMRIVKDYNEYVMRNLDRGYSRKDLGVSYVKEKRLRVNMGLKKLRERVKKQQEKVEEKIQIVAKTAGLNHTLWVENADRLVAGFLEMFEEGCHKMGTAIRDRIQEQLKAK 265
Match: A0A2U1P6F7 ((Rossmann-like alpha/beta/alpha sandwich fold protein {ECO:0000313|EMBL:PWA81322.1}))
HSP 1 Score: 467.233 bits (1201), Expect = 3.474e-165
Identity = 226/279 (81.00%), Postives = 245/279 (87.81%), Query Frame = 0
Query: 7 MNEPPTDRPVRVYADGIYDLFHFGHARSLEQAKKSFPNTYLLVGCCNDEVTHKFKGKTVMTDTERYESLRHCKWVDEVIPDAPWVVTIEFLDKHRIDYVAHDSLPYADASGAGKDVYEFVKSIGKFKETKRTEGISTSDVIMRIVKDYNEYVIRNLDRGYSRKDLGVSYVKEKRLRVNMGLKKLREEVKKQQEKVEEKMQTVAKT----RNMWVDNADRMVAGFLEMFEEGCHKMGTAIRDRIQEQLMVKDKDDF-----DDDDDEDDDDYYDASTDED 276
M +PPTDRPVRVYADGIYDLFHFGHARSLEQAKKSFPNTYLLVGCCNDEVTH KGKTVMTD ERYESLRHCKWVDEVIPDAPWV+ EF+DKH+IDYVAHDSLPYADASG DVYEFVKSIG+FKETKRTEGISTSD+IMRIVKDYN YV+RNLDRGYSRKDLGVSYVKEKRLRVNM L+KL E+VKKQQEKVEEK+ VAKT N+WV+NADR+VAGFLEMFEEGCHKMGTAIRDRIQEQL + + D DDDE+ + YYD ST+E+
Sbjct: 19 MRDPPTDRPVRVYADGIYDLFHFGHARSLEQAKKSFPNTYLLVGCCNDEVTHSLKGKTVMTDQERYESLRHCKWVDEVIPDAPWVMNQEFIDKHQIDYVAHDSLPYADASGTANDVYEFVKSIGRFKETKRTEGISTSDIIMRIVKDYNNYVMRNLDRGYSRKDLGVSYVKEKRLRVNMSLRKLHEKVKKQQEKVEEKIHIVAKTAGMNHNLWVENADRLVAGFLEMFEEGCHKMGTAIRDRIQEQLKKGNVGELTYSKGDSDDDEEGEYYYDYSTEEE 297
Match: A0A251U7B4 ((Putative phosphorylcholine cytidylyltransferase2 {ECO:0000313|EMBL:OTG18746.1}))
HSP 1 Score: 466.463 bits (1199), Expect = 6.316e-165
Identity = 234/286 (81.82%), Postives = 251/286 (87.76%), Query Frame = 0
Query: 7 MNEPPTDRPVRVYADGIYDLFHFGHARSLEQAKKSFPNTYLLVGCCNDEVTHKFKGKTVMTDTERYESLRHCKWVDEVIPDAPWVVTIEFLDKHRIDYVAHDSLPYADASGAGKDVYEFVKSIGKFKETKRTEGISTSDVIMRIVKDYNEYVIRNLDRGYSRKDLGVSYVKEKRLRVNMGLKKLREEVKKQQEKVEEKMQTVAKT----RNMWVDNADRMVAGFLEMFEEGCHKMGTAIRDRIQEQLMVKDKD---DFDDDDDEDDD----DYYDASTD-EDYDKG 280
M EPPTDRPVRVYADGIYDLFHFGHARSLEQAKKSFPNTYLLVGCCNDEVTH+ KGKTVMTD ERYESLRHCKWVDEVIPDAPWV+T EF+DKH+ID+VAHDSLPYADASGA DVYEFVKSIG+FKETKRT+GISTSD+IMRI+KDYNEYV+RNLDRGYSRKDLGVSYVKEKRLRVNM LKKLRE+VKKQQEKVEEK+QTVAKT N+WV+NADR VAGFLE FEEGCHKMGTAIRDRIQEQL K FD + DE ++ YYD STD EDY G
Sbjct: 12 MVEPPTDRPVRVYADGIYDLFHFGHARSLEQAKKSFPNTYLLVGCCNDEVTHRLKGKTVMTDQERYESLRHCKWVDEVIPDAPWVLTQEFMDKHKIDFVAHDSLPYADASGAANDVYEFVKSIGRFKETKRTDGISTSDIIMRIIKDYNEYVMRNLDRGYSRKDLGVSYVKEKRLRVNMELKKLREKVKKQQEKVEEKIQTVAKTAGMNHNLWVENADRWVAGFLERFEEGCHKMGTAIRDRIQEQLKAKANGRVLAFDKNGDEVENDDDEYYYDYSTDEEDYSSG 297
Match: A0A2J6KCM6 (CTP_transf_like domain-containing protein {ECO:0000259|Pfam:PF01467})
HSP 1 Score: 461.455 bits (1186), Expect = 3.313e-163
Identity = 215/243 (88.48%), Postives = 229/243 (94.24%), Query Frame = 0
Query: 7 MNEPPTDRPVRVYADGIYDLFHFGHARSLEQAKKSFPNTYLLVGCCNDEVTHKFKGKTVMTDTERYESLRHCKWVDEVIPDAPWVVTIEFLDKHRIDYVAHDSLPYADASGAGKDVYEFVKSIGKFKETKRTEGISTSDVIMRIVKDYNEYVIRNLDRGYSRKDLGVSYVKEKRLRVNMGLKKLREEVKKQQEKVEEKMQTVAKTRNMWVDNADRMVAGFLEMFEEGCHKMGTAIRDRIQEQL 249
M PPTDRPVRVYADGIYDLFHFGHARSLEQAKKSFPNTYLLVGCCNDEVTH KGKTVMTD ERYESLRHCKWVDEVIPDAPWV+T EF+DKH+IDYVAHDSLPYADASGAGKDVYEFVKSIG+FKETKRT+GISTSD+IMRIVKDYNEYV+RNLDRGYSRKDLGVSYVKEKRLRVNMGLKKLRE+VKKQQEK++ +T N+WV+NADR+VAGFLEMFEEGCHKMGTAIRDRIQEQL
Sbjct: 11 MLPPPTDRPVRVYADGIYDLFHFGHARSLEQAKKSFPNTYLLVGCCNDEVTHSLKGKTVMTDKERYESLRHCKWVDEVIPDAPWVLTQEFIDKHQIDYVAHDSLPYADASGAGKDVYEFVKSIGRFKETKRTDGISTSDIIMRIVKDYNEYVMRNLDRGYSRKDLGVSYVKEKRLRVNMGLKKLREKVKKQQEKIQTVAKTAGMNHNLWVENADRLVAGFLEMFEEGCHKMGTAIRDRIQEQL 253
Match: A0A5B7BZY1 ((Putative choline-phosphate cytidylyltransferase 1 isoform X1 {ECO:0000313|EMBL:MPA73561.1}) (2.7.7.15 {ECO:0000313|EMBL:MPA73561.1}))
HSP 1 Score: 461.84 bits (1187), Expect = 3.948e-163
Identity = 218/246 (88.62%), Postives = 236/246 (95.93%), Query Frame = 0
Query: 11 PTDRPVRVYADGIYDLFHFGHARSLEQAKKSFPNTYLLVGCCNDEVTHKFKGKTVMTDTERYESLRHCKWVDEVIPDAPWVVTIEFLDKHRIDYVAHDSLPYADASGAGKDVYEFVKSIGKFKETKRTEGISTSDVIMRIVKDYNEYVIRNLDRGYSRKDLGVSYVKEKRLRVNMGLKKLREEVKKQQEKVEEKMQTVAKT----RNMWVDNADRMVAGFLEMFEEGCHKMGTAIRDRIQEQLMVK 252
PTDRP+RVYADGIYDLFHFGHARSLEQAKK FPNTYLLVGCCNDEVTHK+KGKTVMTD ERYESLRHC+WVDEVIPDAPWV+T EF+DKH+IDYVAHDSLPYADASGAGKDVYEFVKSIGKFKETKRT+GISTSD+IMRIVKDYN+YV+RNLDRGY+RK+LGVSYVKEKRLRVNMGLKKLRE+VKKQQEKV EK+Q VAKT RN+WV+NADR+VAGFLEMFEEGCHKMGTAIRDRIQEQ+M K
Sbjct: 21 PTDRPLRVYADGIYDLFHFGHARSLEQAKKLFPNTYLLVGCCNDEVTHKYKGKTVMTDKERYESLRHCRWVDEVIPDAPWVLTEEFIDKHKIDYVAHDSLPYADASGAGKDVYEFVKSIGKFKETKRTDGISTSDMIMRIVKDYNQYVMRNLDRGYTRKELGVSYVKEKRLRVNMGLKKLREKVKKQQEKVGEKIQIVAKTAGMQRNIWVENADRLVAGFLEMFEEGCHKMGTAIRDRIQEQIMTK 266
| Match Name | Stats | Description |
|---|---|---|
| A0A6P6WZX3 | E-Value: 1.248e-167, PID: 88.05 | (choline-phosphate cytidylyltransferase 1-like {EC... [more] |
| A0A6P6WN36 | E-Value: 1.715e-167, PID: 88.05 | (choline-phosphate cytidylyltransferase 1-like {EC... [more] |
| A0A068URW1 | E-Value: 1.715e-167, PID: 88.05 | CTP_transf_like domain-containing protein {ECO:000... [more] |
| A0A6S7NHJ4 | E-Value: 2.261e-167, PID: 90.69 | CTP_transf_like domain-containing protein {ECO:000... [more] |
| A0A2U1NMS1 | E-Value: 8.984e-166, PID: 87.84 | (Phosphorylcholine cytidylyltransferase2 {ECO:0000... [more] |
| A0A2U1NMR5 | E-Value: 2.427e-165, PID: 87.84 | (Phosphorylcholine cytidylyltransferase2 {ECO:0000... [more] |
| A0A2U1P6F7 | E-Value: 3.474e-165, PID: 81.00 | (Rossmann-like alpha/beta/alpha sandwich fold prot... [more] |
| A0A251U7B4 | E-Value: 6.316e-165, PID: 81.82 | (Putative phosphorylcholine cytidylyltransferase2 ... [more] |
| A0A2J6KCM6 | E-Value: 3.313e-163, PID: 88.48 | CTP_transf_like domain-containing protein {ECO:000... [more] |
| A0A5B7BZY1 | E-Value: 3.948e-163, PID: 88.62 | (Putative choline-phosphate cytidylyltransferase 1... [more] |
| 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. |