| NCBI Gene |  |
|---|
| Relationships |
|---|
| The mRNA, XM_017371892.1, is a part of gene, LOC108203134. |
| The genetic_marker, MK019066 9_3747946, is located in gene, LOC108203134. |
| The genetic_marker, MK008955 85036.59162, is located in gene, LOC108203134. |
| The genetic_marker, MK010812 9_3748098, is located in gene, LOC108203134. |
| The mRNA, XM_017371891.1, is a part of gene, LOC108203134. |
| The mRNA, XM_017371890.1, is a part of gene, LOC108203134. |
| 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. |
| Transcript Name | Identifier | Type | Location |
|---|---|---|---|
| XM_017371892.1 | XM_017371892.1 | mRNA | DCARv2_Chr9:3744370..3753440 |
| XM_017371891.1 | XM_017371891.1 | mRNA | DCARv2_Chr9:3744409..3753440 |
| XM_017371890.1 | XM_017371890.1 | mRNA | DCARv2_Chr9:3744409..3753440 |
AAAACAGGAGTCGTACAGGTACAAATGTCTCTCTCTCTCTTTATTTATTC
TATTCAACCTTGTTGCAGTAATAGTACCAGTTAATGCTGTTCCTCTCCTC
TCTCTCTCCCTCCCTCCCTCCCTCTCTCGTCTCTCTGTGTGTACACACAA
ACATACCACAGCTTTCCTGCAGTTCACGCTAAAGTCACATGAAACTGTAA
GATTCTTCTTTCTCTTCCTGCAATTTATATTATTAAACTTTCTACAACAC
TAGAACTGGTTTGATTCATTTGGTGATCTTCGTTTCATTTAAAGGCCAGT
TCTAACTGCTTACACTTCATTTACATTCTTTTTTTATAAGCTTGATCTCA
GATTTCAATGATTTAATTCATTTCACCAACTTTTCTTCATTGGGCTCGGT
GTAAAACAAGATTTGCGTACAAGTCTATAGATTTAATATTTTTAAATTGC
ATGGTATCGCCCTCGCTCCGCTTACCTGACATGCCTGTTTGGCTATGATT
TTTTTGATAAGAATTCGGCTTCTGCATTTCTTGACCCGTTTGTGTAAAAA
AAAATCGGAATTACTTGGAAAAAGCTGAGAATACTAGCTTTTGTAACATA
TACTTCTTTCTCAAACGGTTTTTTTAAGTTCACCCAAAAGGCCTCTTGTG
AGTTGTCTAAAGATCGTTTGGTAAATGGTAGTAAAATTGCCTAACAATAG
CATGCTATTACAGATCATAATGCTTGCATCTAAATTAGGATAGCAATTAG
AACTTTCTCAACTTTTTTACCACACTAATGGATTTGAATTATAATATGAA
ACTGAGTTTTTTTCCTGGCTAGATTTAAGTTTGTCGAATGCAAGTGTTTT
ATCTTTAAAAGGGTTATCCGAGACCGGAAGTTGCCTATATATATGCACAA
AAGTATGTTGAGCATAAGTTAGTTCGAGGTTTATGCAATTTTTAATGTTA
TGGTATAAAGCTTTTATTAGATTAAAAAAAAAGCTGTATAATAAAGGCTA
AGTTGAATTTTAGGAGGCAGTGGAATAGCGGGAAATTGGCCTGTTGATGT
CAAAAGGCCTTATTATGCTCACCAGAATACTGATTCTATAAAGTAAGGGA
GAATTTTGATTATGCGGATATGTCAAGTAAGGTAGGAGTTAATTTTGGTT
ACTCAGATTAGCATATATCACTAGGTTAATGTAGACTTTAAGTTTTTTTT
TTTGTGTTGATATCGTTAATCATAGTTTGTTCCAGCAGAAATAAAGACCA
CAAAATTCAAACTCTGTTACCATTGTTTATTGATAGTGAAATACTTTAAT
TTGATTGGAAAATGTCCAGTTGACACCTTTGTCATGACAATTTTAGTTTG
ATTAGCTAGCCTCACATAGGTTTCTGAATGCTCAGCTAATGTCGTTTTTA
GGTGGTAGGTTGCTTTGTCATCCACCATCATGGAGAGCAACGAAAGGTAG
TCCTGCTCTTCAGACTCAACCTATCTTCTTTATCCAACAAACTTGCTTTA
CTATTGACTTGAGTGATTTCAAGTAATTGATAGTGTTTTATATCTTCTTT
TTTGCCGTTAAAGGAATACAGAGAACATGTTTCCAAATGGAGATGTTTAT
TTAGGTGAATTAAAAGGGATGCTACCTCATGGAAATGGTAGATACACTTG
GTCGAATGGAACAGTTTATGACGGTGATTGGGACAGTGGAAATCTGACTG
GTAAGGGAAAGATTATTTGGCCTTCTGGGGCATCTTATGAGGGTGATTTC
TCCAGGGGTTATTTTCATGGTTGTGGAACTTTAATTAGTTCAAACGGTTC
TGTTTACAAAGGCTCCTGGAAGTTGAATGTTCAGCACGGGATTGGAGAAA
AACAGTACCAAAACTCAGATGTTTACGAAGGTTTATGGAAAGAGGGGATA
CATGAAGGCAGCGGTAGATATGCTTGGAGTAACGGTGACATTTATATTGG
TACCTGGAAATCAGGTAAAATGTGTGGTAGAGGGGTTATGCAATGGTCGA
ATGGCGATCTCTTTGATGGCTTTTGGTTAAATGGGTTAAGGCATGGGTCT
GGTTTCTATAGGTTTGAAGATGGAGGTTACTATTTTGGGACATGGACCAA
AGGCGTAAAGGATGGAAGAGGTCAGTTCTATCCGGCAGGAAGTAAACGCC
CATCTCTCTCGAAATGGTGTAGCTTTGGGTTGCACGATGATGATAAGGAG
GGATCAATCTCTCGTAGTTCATCTATCAAGTCAGAATGCAGGGCTATTAA
ACCTAAGGTTAATCGCAGTCTTTCTGAGAAGTTCTCATTTGATGGATTTT
TTAGGGGTTCAGGTCGTATATCACATAAGAGTATATCATTGGAGGAGAAT
TGGAGCCTTAGTCATTCTATGAGAGAAGCTGCACACTGCCACACATCCTG
CTTGTTATCTAGTAAATCTGATAAATTTCAAAATGAGGTGCAGAATAGTG
GTTCTGTAGTTTATGAAAGAGAATACATGCAAGGGGTTTTGATCAAACAA
AGAGTTATAAATAGTGAAGGTCTTTCTAACAGTAGTAAAGAACGGTCTAA
GACAAAGGAAGCAAAAATAAAGTCGTGTGCGAACACATATGAAGACCAAA
GAAGCTATTTTTTGATGCTGAATCTGCAACTTGGCATTAGGTAAAGTACA
TAAACAGAAAAGTGTTTGTTTGTTTTGCTGTTATATCTCATATTCTTTGC
CATGAATCATGAAGAATCTTGCTGTATAATTTGATTAACAAGTCCTTAAC
AGCTATAAAAAAATATAAAGTATCAACCGAAGACTGAACATTGAACTAAA
GGTTGTTCTGCTGGTGAAAAAGTACTCTGGGAAACTTAGAGTAATCAGAC
TGAACATATCTTAGAAAAAGGCTTTAAATGTCATGGTGTAACAAGATGCA
CCACACGATAGAGAGTATATATGTCAACTTCTTTTCATTTCGTTTTATGC
CAAACATACATCAGGTGTCCATGTTTCAGATTATTAGCTCAAGTAGTACA
TAAACTACTCAGTCAAAGCTCAAAATAAATCTTATATTTTTTTTTGGNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGCTAAA
TCTGAATTCTTTAACCGGGCTGGTACAAAGGAACTGTATATAAGTTGCCC
GGATCCTCTGATTTGTTCACATGAAGGCCGCAATCAATTAATAGACCCAT
GTACTGGCTCAAAATTATCATGGTACTTCCGCACTACACCTTTCAGTCTT
TGCCTTTGCATCTTCTGTTGTTGACCATAAACTGGTTATCTAACAGTAAA
TATTTTCATCAACTTAACTCTTCACATTGTCTGATATTCATTGTTGATTG
AATCGTGTGGTACTTACAGGTATACTGTTGGAAAGATTACGCCGGTGCCT
GTGCGTGAAGTGCGATCCTCTGATTTCGGAGAGCAGGCTAGAATAAGAAT
GTATTTTCCTAGAAGGGGATCCCAAACAACTCCACCACATTACTCCCTTG
ATTTTTACTGGACGGATTACTGCCCTATGGTTTTTCGGTATGTATATGCC
TCTCTGACAGCAGCAGCTACATCCTTTTTCCTTTCTTTTACTTATCGTTT
TCTGGGAAATGAATTATTTTTCTTGGACACGAGTACTCAGGAATTTGAGG
GCGATGTTCAAGCTAGATGCTGCTGAATACATGATGTCAATATGTGGATA
TGATGGCTTAAGAGAGATTTCTTCACCCGGAAAAAGTGGCAGCATTTTCT
ATCTCTCTCACGATGACAGATTTGTGATTAAAACCTTGAAAAGATCCGAG
CTGAAGGTATGAACATAAAAAAGATATGAATTTTTTACTTTAATGTGGTG
TTTTCATTTCATACACATTTGGCACATAATTTATAATTGTTACCAGATCC
CATTGTATATCCATGTGAATATGTCAATAGCTGGTATGGGTTACTCATTT
TATCACGAGTTCTTCAGATTTAATTTCTCTAAAACTCAGCAGAAATGTAC
ATATCTTCTTAATAAAGTGTTTAAAATTATCATTTTGTGAGTTGAATATA
CAAAAGATGTAAATGACACTCATTTCCCACCATTTACTGGCAAACTTAAA
CTTATAAGAATGGTTGGTTGAGGTCTAGCTGTCACAGTGAGGGTGGATGT
TAGGTAAAATATATTGATACATTATTGGCCATCTGAACAGTTGGAATGGG
AGAAATTATGTTAGTTCTAAGGGTTTTTGTTTACTTCTTTTTGAGTAATA
TCTACTAAATAGCATGAGAAATAAAAGAAAAGGGAGCAACAATATTTTAG
CTTTTAGCCTTCTTTGTAATTTGTAAACAGCTGTATCAACATGTTTATGC
AAAACATCGTCCTCATAAAGTACCAGGAGTTTGTAATGTAATGTTCGATC
ATCACTTCGATATGCCAAGTGTGTATCTGTTTTTATATGAAAAAGTTGGC
TGCAAGGCCTTGGGTGAAAAGACTTCCAATGGTTTTCTTAAACACTTTTG
TTGTGTTTGGTTAGGGAGGATGGAATGAAATGAGTAAAAACAAAAGAAAT
CATTAGAGGTAGAAGGGAAGTGTTGAAAAAAAATGAGTTACTGCAAAATT
ATTGTTGAGAAAAAAACGGAAACAGGAGAGAATGGATCATTCTTTCTCAA
AATAGGGGCGTGACAACTAGTTTATGGTGCATGAAGTGAACTTTTGAACA
AGTGTCCATTTTATGGTTCAAATTTCATTCCATTCCTTCCAAATTCATTC
ATTGGAACCAAACACAAGATTTGAAATTTATCCTGTTGAATTGATAAATT
TGCAGAACTTTTAGTCAGATGTTATATGTTTCCACGAGGGTTATTCTTTT
CTTTTCATTAAGAACTTTAGGTTTGATAAGATTTAAACTAAAGCTGACAG
ATGCACTTTGAAATAAGTAATAACTGCTACCTTACATTAAGAATTATAGG
TTATCTTTTTTGATTATATGATTATGATACCTTTCATGTTAGTTACTGTC
CTCTTACCTCTCATCATTTGTTGTCCAAACAAACCATCCTGATAGTAGCC
GCTAAATTCTTGACATTCTGTGCATACCGCAGCCGGATTCTAACTGGCAT
AGTTCTTTATTTGCTGTCAGTTATATACTTACTGACTCATCCACCGGTAA
AGTGAGATTAGGAATGTGAGCCTCTACCTATATGTGATGCTTCAGGAATA
TATTCACTTGCAATTTGCAAAATCACACAATAGGGTTGATTGAATTAGCT
TGTAATGCATGTAGTGCAGCTGCACTTACAAATTGACAAGAAAGTCAAAT
TTAAGATGAAATTTTGAACTTCTTACCCCTTCCTGGTAAGAGTTTTGGGT
TCTATATAATTATTTTATTGAACCCATCATGTATAATTATCGTTTTGCCG
ATCGTATAATCATAAATAGAGAGATCTCTCCCTAGATTGGTTTTTATTAT
TTAAATATTTTTTCAGGTTCTACTTAAGATGCTACCTAGCTACTATGATA
ATGTGAAGGAGCACGAAAACACCCTTATAACAAAGTTTTTTGGAGTTCAC
CAAATAGCATGGAAGGCTGGACGAAAGGTATGTAGTATAGGTTCTTTTGT
CCTTGTGTTCTTTGGTGTGTGACTTTACTCGTGGATGATGATTTACTTAT
TTATATCTACTTAGATACGCTTTGTTGTCATGGGGAATATGTTCTGCACT
GAATTGCGTATACATCGTCGTTATGACCTGAAGGGTTCATATCAAGGAAG
AGTTACCAGTAAAGTTGAGATTACAGAAAATACCACATTTAAAGACCTCG
ATCTGCCTTATGAATTCCACATGGACAAACTGTTGCGTGAGTCACTTATG
AAGTAAGTTTCTTGTTTGTAATTATGTTGGAGATGCAGATATTCTGAGTA
TATCATCTAGATTAGGGATAAATAAAAACAAAATAATTTATTTTGTTTGC
ACATAAGCAAGATTTAGTTTTATGATTACTCCTTTCATTGATTACAAGAT
TGCTACTCTGTACCAGCTTTTGTTAAAATATCCAGATAAAAAAAATTATA
TCTAAAACATCATGTAAGGTGCTATCTACTATCCATTTACCAAATACCAG
CAGAATTGTTTGTTCATGCATTGTGCAGACAAATATCCCTCGACTGCATG
TTCCTGGAGTCTCAGCAAATTATTGATTATAGCCTTCTACTGGGGTTACA
TTTCCGAGCTCCTGAGCATCTGAAAGCCCTTTTGGAAACTCCAGGATCCT
TGCACAAGCCAGAGCATACATTTGCTAAGCATGGTACATCTCATATAGAA
AAATCTATTACTTGTGTTCTGCTAGTTATTTCCTATAAGAACACTAGCAT
GTGAAGTCTATGACACTGAAACCTGACTAATTCAAGAGAAGCAAAGCATC
TTTTTACCTTGATTGCAAATATGTGTTATGAATGCCATTCAGATACTTTT
ACGTCCTGTGAGGGCCACAGCTGAAAGAAACTGTCTGATAGTCGAAGGAT
TATCATTTGGATCATGGAAGTTTTGGTTACAAACAGAACACATTTGAAAA
ATGCCATCCTTATATATACAGAAAGTTCATGTAAATAAATAGCGTATGAT
ATCTGGATAGAAAAAATTTGTTGTAAATGTGACCAGAAGGCACAATTTGT
GCAACTGAGTAGCTTGCGAATGCTACGTTGGAGTTATTTTTCATATGATT
CATGGACAAGGAGCTTATGTGCTTTCTAAGACTAAATGCATTTGGAATCT
ATTAGTGCAGAATGTGTGCTGCTGTTTTCGAAGCAGTTTTTTTTTTTCCG
CTTCCAATCTAGAGCAATATTCGTTGTTATTCATGTATTTGTTCACTTTG
GCTTGGTAGGCACCTATTGCTTGTACAGAAATATGCACAACTGACCTCGT
TTAAAGTTTAATAAATGGTCTCCTTATTCGGGTATCCTTAGAAACTACTA
AACCAACAATCAGTTAGAACTTGGGAACTTGGTAAAATAATGCTAGTACA
CATTTTTCTCCATTTGATGAATATATATTGTTGACATGTTACAGGCGCAA
TCTCCCAGAATGAACTATTGATACCTCCAAAGGGACTTCTACTTGTGACC
CATGAACCCAACTTCGTAAGCACTCAACCAGGTCCTCACATTAGAGGAAA
TACTTTGAGAGCATTTTCTGTGGGTGAGCAGGAGGTGGACCTTCTTTTGC
CTGGTACTGCAAGGTATATACTTGCTTCAGATATTTCAATTAGAATGTGT
ATTACATACTTATGCTGTAAAATCCGGTGTGAAATAAAAAATATTACTTG
TAAATTCCAACTCAGATAATTTAATTTCAGTGTCGACAACGCCTTTACTC
AAATGTAAGTAATAATGCAATTTTTATATAACCAAATATTAGCTACTTGT
TGGCAAGGTCTGTGGCCAGCCTTGTCGAAGCCAGTTGCAACAGGTAAGTT
ACAATTAGAAATTGTCGTAGATGATTGGAGCACAATTCATACGTAATGTT
GTGTCCACTTAAGATTTCTGTTACTTAGGTTCAAGTTGTTACTTCAGATA
CCTGCTATAGCCATGTTTGTACAAGTTTGACAACATGGTTGGAAAAGCAA
TGTGCTTCGTTACAAGGACATTTAGCAACCAGTCCATAGAGCATACCGAA
TAGGCTGTAGAAGCAATTTTACTTACCATTATACGGAGAACATACATTTT
TGTGTTGCTAAACATGTCTCTTATATATATAGACCCAGTGCTATTACTTC
ATGACTTGTGAAGTATATGTTGCATTGCCAAGTTGGTCCATGTATTAACT
TTAGGCCTTTGGTTTCTAAATTTTTCATAGGCACGCTTCCTATATAATTT
ACGTTTCATGTCATGACTTTTGTTTGGGTAATTATCATAATTTTGTAAGT
AAAGGAGTAGGAGAGACTGAGGATTCAAACCCATGAGTTTGTCTTGGGTC
GAAGCTGGTGTGGATGAGCATTTGCCAAAAGGCTATCCAGTAATCCTAAT
TTTTATCTTTCTATATGCAGTATTGTCATTCAACCTTTGTTGCACTACAT
TAATTTCAAAAGCATAATTTGTAAAACTAATATCTTAGTGAATTTACTGT
TGAAACAAAGTCTTACTAAATTGCTATTGCCTCAAAAATTCGCCAGATTA
CGAGTCCAATTAGGAGTGAACATGCCAGCTCAAGCCAACCACAAGCTTCA
GCAGGATGGCGACGATTCATCAGAAGCTGAACTTTTTGAGGTTTATGATG
TGGTTCTCTATCTCGGCATAATTGATATACTGCAAGAATACAACCTGAAA
AAGAAACTGGAACATACATATAAATCATTGCAATACGACCCTATGTCAAT
ATCTGTCATCGAACCCAAGTTATATTCAAAACGCTTCATAAATTTTCTCG
AAAGAGTCTTCCCACTTGAGCCTTAAGATGAGTAGTACTCTTCCTCTTCA
TCCATATCTAATTCTGCATCTCTTGCTGTATTTTCTTAGGGGCCGTTTGG
TTCATGGTTAACGAGCCCAGTTAACGGGAATTGGAACCTCATCCCCATAC
ATCGTGTTTCGATTGGCAAAATTTTTGTGTGAAATGGGAACCTCATTCCC
TCCACATCCCTTGGGTTACCCTTTCCCATACCCCCATTCCCGTACCTCTT
ATTCGCATTCCCGATTCCCATTCCCACCAACCATCCAAACACCCCCTTAG
TCTTTTGCAGCATGTAGGCCCAATTTACAAGCTGTTAGCATTCTGGGGTT
TTATGTATATCAATAATTCATGATAAATACATGCATGCACCACTGAGTGT
TGCAGCAGTTTGTCTGGTGAGATTGTCTAATTTTAAGCTCTGTTTCATAT
ACCAACAACATGGTGCTCAGCAAATTATATCTTAGTCTTATCTGTTGAGT
GAAAATAGGTAAATGGCCTGTATATTCATTTATATTTGTCTTTATTAAGT
GTTTCCGTGAGGCTGTGACTCTGGCATACATGTGATGATGTGAAGCGTGT
GGTCTACTGGTAAAAAACGTTGTTTTCCCCTTTACCGGAATGCTGGAGTT
TATTTTTTTTTGTCAGAAAA