| NCBI Gene |  |
|---|
| Relationships |
|---|
| The mRNA, XM_017403129.1, is a part of gene, LOC108227789. |
| The genetic_marker, MK003716 K1160, is located in gene, LOC108227789. |
| The genetic_marker, MK003877 K1321, is located in gene, LOC108227789. |
| The mRNA, XM_017403130.1, is a part of gene, LOC108227789. |
| 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_017403130.1 | XM_017403130.1 | mRNA | DCARv2_Chr6:24201899..24211593 |
| XM_017403129.1 | XM_017403129.1 | mRNA | DCARv2_Chr6:24204385..24211593 |
CCTCTTTCTCTCTCAAACAAACCTCTCTCTCTCGCTCTGCACAAACACTC
TCATGGCGCTCTCGCTCAGCTGATTCTCCTCCACCTTCAATTAGCCTCTA
GATCCGTGAGTCCTCTCCTTGTTTTTTTCATTCTCTACGTAATCTTTTAT
CTCTTTGTTAATTGCTTGCATATCTAGTTTCCATACTACTGTTTTACGCT
TTCTCTCTCTAAACTTTTTAATATTTGTATGCATCGCTACATGTTTATCT
CCTTCCCTTTGCGCAACTACATCTCTCCGCTCTTATTCATGAAAGCTTAC
TTGCCTTCAATTAACTAGTAGTAGCAGTGTTCAACCTAGAAAATAAAGTA
TATTATAGATGCTCTAAAAAACGAACACAAATTTCACTTTCTCTCTCTAG
TTATATCTCTCACTAACTTTCTCTCTCTAAAACCACCCGACCGTAACAAC
TCTCGTGTCAACACTACTCATCACACACATTTAGATATAATATTATTATA
ATATATGTAGTACCATTAATCCATACCACTATGCTCATTCTCTCTCCTCT
CTTTGCTAAAAAGCTGATTCTTCTGGTTTCTCTCCACACTCTCTCTCCTG
GAAAGCAAGTCTTTTAAACATGGAGCGCTTCTCTATTCGGTGAGCTTCTT
TAATTTCTCATTATTTAATCATAGCTTGTGGACTTTATTTAATTATGTTT
CATTATGTTGTTTCTAAAATTAGAGAGTATACTTGCCAAATGAGAAGTGT
AGATGTGATGAAATGCTGGCCGTTCGGTCCAACCAACATAGAGTATGTAC
AGGCATTTCTACCTGCTATTACTGTTAAGAAATTTAAGTGGTGGACCGAT
GAGCTGGAAAATGAGCTCACGGAGGATCTCACTTGTCCGGTGTGCTTCGT
ATTTAAAGCCTTGTCCACACAAGAATTGAATGGTCATGTGAGTAGATGCA
TTGTTCAATTAGGCAATACGGAGAATAGTAGGATGAGAGCAAAGTCGAGG
ATGCCAAAGAAGAGATCGATTGTTGAGCTTTTTGCAGTGGCACCTCAGGT
TGACAAGGTATATGAGGATGAGGATGAAGATGGTGATGATTTAAGTGACC
AAGACGACCATGTGAAGCTATCGGCCATGATTAGAACGCGGTTCAATGAG
AAAAGGAACAGGAAAATGAAATCCAGAGATTTGACGTTAGTGAATGTTAG
CATGAATTCGAAGAAGAGGAAGAGTGGTATGAAGAAGGGAAGAGAGGCGG
ACACCATTGATATATCAATTGATCGTAAGGTATGCGACTGGTATTTTCCC
TTGATTATTTAAATGCTAGTACTCACACAATTAAGGTTATGCTTAATTTG
TGGCTTTTTTTATTGTAAACAATTTGATTTAAGCATAAAATATTAATTCT
TTTGTTTTAGTATTGTTAATAATGTCTTTATAGGCCACTATAACATTTGC
ATTCAGTATCTTTCTTTTTATTTATGCTCTGAAAAAGCTGGTTAAAAGCT
GCATTTTCTCTAAAGCAATATATATAGATATAAATATAGAGGATGTCATT
GTACTTGCTTGTTGTGTGACATAGGCGGCAATGAGATTCAGTATAAAGGG
AAAAAGGTAAAAACAAGAGATGGGGTTTTCATGTTGGAGATTATTAACTG
ATTAAGTAGTATGTGAACTAGAATATGGTGCTGCAGCTGCACAGTAGTAG
TGGGTCTGACTAGGGGTGGCAATATTGGACCCGACCCGACAACCCGACAC
GAATTCGACCCGCAAAATACGAATTCGGATTGGGGGTTTTCGGGTTCGGG
TCGAATTCGGGTTGACCCAAAATCAACCCAGAAAAATCGGGTCATTTTCG
GGTTGAATTCGGGTTACCCGAAATTGACCCGAAATTACCCGAAAATTAAT
ATATAATATAAATATTATATATATTTTTATTATTTTTATTATTTTTATAA
AATTTATTAGTTAAATTTAATATAAAATTATTTAATTTAATAAAAATTAA
TTTATTTGGATTAAAATAATATTTATTTATTATTTAAAAAATATTTTTAT
TAATAAATATTAATTTTCGGGTCGGGTTCGGGTTACCCGCGGGTAGTGCG
GGTCGGGTTCGGGTTGGGTATTCTGACCCATTAAATTTTCGGGTCGGGTT
CGGGTTGGGTAAATTTTTTGACCCGCGACTGTCAACCCGACCCGAACCCG
ACCCGAAACCCGAAATTGCCAGCCCTAGGTCTGACTATGCTTTTAATGGC
TCTGAAAGACTATCCTTAGGTCCATGGGCAGTATATCTCACTATAATTTG
ATATTACTGTCCGTACTTTTTTTAAAAATCTTTTCTAGAGCCAGCACAAT
CTGGGCATAAGGGGAATATTGAATTTCTATGGTTCATCCTAAAGTATTAG
TTATTCATAGAATTAGTAATTCTATTTGCTAGCTAGCCTAGCCATGGACG
GATACCAAAGGAGTATTGGAGATCAATTTGTGAGGCTTAAGCGCAATAAA
AATATAAACTTTCCATTATTCAAACCAACCTTGCATTAAGCATCACTGGA
CCTTCCCCTACGCTGTTACAAGCTAAATGTTTATCATATGTACGTTTGGT
AAATGTTTTAGCATTGTGTATTTGTGTATATAAGAACCCATGCGACTTTG
CTTACTTTCTATGATGCAATCAACTGATATACATAAAAAGTTTAGGGTTC
ACTCCCCTTACAAAATAATCTTATGCTGGAGAGCGTGTTATTTCTTTTGT
CAGTGAAATATGGCGAACCTTATATGTAGCTGTACTAATGTAAAAAAGCT
ACAAGGTTAATGCATAATCAATTATTTAGAGCTCAGATTTTGGACAGGAT
ATCTGTATTGGACCTCATCGGTACAGCTATTCGATCGAGCCAAAACTGAA
TTACAAGATAACACGGTAATGCACAGTTATATCACAGCATATATAGACAT
GCATTGGATAATACTGCTAATGATTCTGAAGTCAGTACTTGTGGATATTG
CATCATGAATGATTCAGAGGCAGTATAGTCATCTTTCAATTTATGGCATT
TGCTAATATGGTACAAGGATAGAAGAATATACACAACTGTGTAATATTAA
ATAAGTTCCACCTCTTCAGATATTGAAAACCAGAAGAGTTTTCCTCCCAT
TGTGGTATTTTCTATGCTTCAGGAATCGACATATACTTTATAAGTTCTTT
CACAAATTATGAAAGTGCTTCTCCCTTTTTCTCAGGACAAATTACTTGCA
CCAAAACAGAAGCGCACATTTAATCCGACGGAAAATGTTACTGCCTCGCC
ACATATTCTAGAGTATGCAAAAAAATTGGGGGATGCTGCAGGAAAGAGGA
CAAAAGCGTTTGGGGCCTCCAAATTAACTTTGGGAAAAAAGAAGTCAGTC
TTTTCCTTTCATTGCATTCTGAAAAAGCATTCAAAAGTTGTTTCAGGAAA
GAAGAAGTCAACAATAAACACCTTTCCAGATTCCAATGAAGCAAATTGGT
GTTCTACTAATCACTCAAACAGGCATGTAAGGATTTCAGGGAAGGATGAT
ATACTTGAACGAAGGATGAAATCTGCTCCTCATGATGCAGTTTCTTCAGA
AACCAATCTCTTGGCAGAAGAAAGGGACAAATTTTGCCCTTTAAATGTGG
ACAAAAGTAAAGGCAATTCTTCCATCAACAGGGAGGAAAACAATGAGTTC
TTTTCTGTTACCGAGAAATCAACACCTGATACATGCTTGTGTGTGGAAAA
ATTTTGTTTTTCAAGGCCTCGTGATAGTCAAGAAAATTTAGTAGACAGAC
CTGTAGCTTCAAACAAATTTGCATACTACAGTGACCATGGTTATGAAGTT
GCCTCACCTGATTCGTCATCTGCTTGCCCACCTGGATCTGGTTCAATGAG
AAAGATGACGTATAAACCCAGCATAACCACTCGAGGAGACGAGAATTTGT
CAATGTCTTGTACGTCCAAAGCAAAGGTGATTTCTCACTATGTGGATGAC
CCTAGACGTGATGGAGCTTGTTTTAAAGATTGTGTGACCTCATTTCCCCA
GGCATCTTCATCTTCTTATGTTAGTAAGGAAAACTGGAATGCGTGCGGGG
GGCAGATTTCCCCTCATTCGGCCTCAGAAAAGTACCCGGGCCAAATTTTA
AGGTACCACCCTATCCCACATCTTTCACCAAAGGAACTAATGCATAGTTT
ATGTTCTCCGTCTGAGATGGAGCAAAGGAGTGAGGTGCATTTGGGAAGGC
CCAGAAATGGAGATTATACGGGATTGCCTCTAAATTCACATGGAGAATAT
ATCCAGCTCGCCAGTGGCAAAGGTGGGTTTAACCAGACGATCAGGCCAGC
TATTTTTACAGATTCATCGAGAACCTTGGCATTTTGTACTGAACCACCAA
GTAACCAGGACGGTCAGTTATCATTTATCAACCATGATGAGAGACTACCA
TCAGAGAAGCTGTGCCACGTTTTATCTTCCCATGGCCAATTCAAAGAGAA
GCCAAATAGTATGGAATCATCTAGTTTGGGCACTACGAGTGGGACAGATG
CGTCCTTAGAATTTCGAAGTTGCGATCCCATCTATCCTTATAAATCAGGT
ATCAACTTGATGAGCCTTCCTAGTCAGAGCAACAGAACTGATCAGTCACA
GAATTACTCTAATGATAGAAACATGTATCCGGAAAGGCACCCTAATCTTA
TCTTAGGAAATGGCACTCAACCAACAATGCGATTGATGGGCCAAGAATTC
TCTATTGGTAAAAATTACAGAAATTCACACGAGGGGCAAAAAGTTTGGAT
GGACAATCAGATTATGGTTCATCATGATGGCAATGCTATCAGTTATGAAT
CCTCAAGACACTTTCAGCAAGACTTAATGATGCAGCGAGGAATAGAAAAA
AATAAAAGGATTGCATCTTCATCAGAAATTCAGATAGATATGCTCTCACA
AAGCGTTTTTCAGATAATACCCCCGGATTCCAGCTCGCCAGTGGCAAAGG
TGGGTTTAACCAGACGATCAGGCCAGCTATTTTTACAGATTCATCGAGAA
CCTTGGCATTTTGTACTGAACCACCAAGTAACCAGGACGGTCAGTTATCA
TTTATCAACCATGATGAGAGACTACCATCAGAGAAGCTGTGCCACGTTTT
ATCTTCCCATGGCCAATTCAAAGAGAAGCCAAATAGTATGGAATCATCTA
GTTTGGGCACTACGAGTGGGACAGATGCGTCCTTAGAATTTCGAAGTTGC
GATCCCATCTATCCTTATAAATCAGGTATCAACTTGATGAGCCTTCCTAG
TCAGAGCAACAGAACTGATCAGTCACAGAATTACTCTAATGATAGAAACA
TGTATCCGGAAAGGCACCCTAATCTTATCTTAGGAAATGGCACTCAACCA
ACAATGCGATTGATGGGCCAAGAATTCTCTATTGGTAAAAATTACAGAAA
TTCACACGAGGGGCAAAAAGTTTGGATGGACAATCAGATTATGGTTCATC
ATGATGGCAATGCTATCAGTTATGAATCCTCAAGACACTTTCAGCAAGAC
TTAATGATGCAGCGAGGAATAGAAAAAAATAAAAGGATTGCATCTTCATC
AGAAATTCAGATAGATATGCTCTCACAAAGCGTTTTTCAGATAATACCCC
CGGATTCCAGGTTTAGTAGTCCATCCATTGGCTGTCAAACTAATGCTGTG
TATGAAAATGCCTGTCGTGCCTTTGGTGGGGTTCCTGTTCCTCAGACGTA
TCCTTATCTTCCTCCAGATTATTCACCTGCAATCTTTAACAAGGGATCCA
GCTCTCAGGAAACTTTTGTATGCGAACATGAATCTCTACCTCTCAATCAC
CAACCAGTGAGAGCATCCTCATCTTATAATGCTTACCAAAGCTTGAGCTC
AAACTATGCTGAAAATTCTAGGATGCTGCCTCAACCTCATTCTACAAGCT
CAGCCTTCAAGTTTCCTTTTTTGTACACTGATTTAGGAGAGCATGCTCAG
CCATATAATTGCCAGAGCTCTTCTAAGAGCATTACCTCGTCTTTGTTAAA
TGCTGCACAAGCTAATGAATCTACGATTGGTTCATTCCAATTCTATTCTA
ATGCAACTGATAGTCATCATCACCATTGCATTTCCAGTAATAACTTTCAA
AAATCCCAATTTGTTCGCTGCACAACAGATGTTCCGTATATACACAATCC
CTTGACTATCCAGTCTCCTTTGCAGAATGGACCTAATTTGGCTTCTATAG
CTCGACCTCCAATCCGCCCAAGGTTTCTCCCAACTTCAACAATGAATGAA
AAACGTGAGTATAGATTGAAGTTTAAAGAGCGAATCAAGGCAAGACTTTG
TGTTAAAGACCCTCAGAGTAAACGAACCAAAAAGAAGCCTGGATCAAAGC
CTGTCAAGTTAACGACGCCAGGAGATATGAGTAGTGGTGTGACTGTGTCA
AAGCTTGTTGGTGATGCTGAAATTGGTGCACTTGAAAGAAAAGAAACAAC
CGTGCTTGATAGATCTGGTGATGTAGCAAAAACTATAATTAGTGCAAGCA
AACCTGGAAATCCATTAGAAGGTCCTCTAAAGCTCACTGCCGGGGCTAAG
CACATCTTCAACCCTAGTGGTGAATGTATGTACAGTAGTGACTCCAAGCT
GACACACTCAAAAGTTCCTTTCACTACGCAATCAGATTCTGCAATACCTT
TGGAATCACATCCATCCAAGATCTACCGGTTTTAGTTGTAAGTTTATCAT
ACAATGTAGAATTCTTTAATTATTGAAAGGTTGATAATTTGTTATCTGTC
CATGTTTCTTAACCATCAGTGGAACAGGTATGCTCTCGCAATTTACCGAA
TTGCCAAATTTGCTCAAGTGTTGTCGCTGTTCCACCATACCAGGTCATCT
TCAAATCAGGAGTTCTTTTGTTAAATTAAACAGCTCAAATATAGTGCTCC
TGTACGAACAGCCAAGTAGTGCTTCCTCATCTCTTCTTCTTGTTTTTTAT
AATGACTACAAATCTCTGCAGTCTATTGTATATGTGAATATCATGGAGGC
CGTTTGTTGCTTTGCAAGATCTTTGATATCATCTTTGTAATTCCCTGTAA
GATTAGTAATTATTTTGTTTTCATCTTAACCATGAGCCAATGTTTGTATC
ATGTAAAATCTTATTCTAAAGGGTTTGCTTAAGGAGCACCTAATTTGATT
TTCTCTCATTTGCTCTAGTAATTCTGCAATTCTCATGCGCCTAGTTGCTC
ATCTCTAGAGAAATTGAGTAAATTATATTTGAAACAAATTAAAGTTATTT
GGTTGTGAAATCTTGCCACTCCTGTCTGTGTTTTATGATACATGATCTTG
TAGTATAACTTTTTAATTTCTTACACTATTTTAGAGCTTTTCAAATACTA
AATCATTATATTTGTTAAATAAAATAAATCTATTTCATATATGTCATTTA
CATTATGTTTGTCACAACAAAATAATTTTTTTTGGAAAGGTAGTCATGGA
TAAAAGATTTTTTGGTGTGATATATAAGGAAATGGATTGAAGTTGGTCCT
ATTAATGATGTAATTTTTACATTACAATAGTGTAAATCAAAATGGTGTCA
TGAGTTGAAGTTCATTTTCTGTTTTAAGTTTTAATATTATGTTTCATTGG
AAAGAATAAAATGATATATGTAAAAATAGACGATAATTGTTAAAATACAA
GTATAGATTTGAAAAAAATGTGTTATCGTAAAATTTTAAGATGAAAACGG
AGAAAAAGAGAAGAAGAAATAACAGAATTACAAGTAAAGATTTTGAAATA
ATGTGTGAGCATTAATTTTCTAGGATGAAATTCAAATAAAAGATATATAT
TATGAATCAGGATTGAACTTGTCTTGTCAGAGGAGAATCTAAACTTGGCA
AGAGAATATCAGATTGGAATATCTAAAGTTCATTTGTCTTAACAAAAGAT
TTATAAATATTAAAATGCGAAAATAGAACTAATTGGTGTAGTCGTCTTTT
AGTGATTAATCGTATAATCAAAGATTAATCGGAACATTAATCAAATATAT
AATATGATATAATAATATTTAACTTATCAATCAATTACATTAGTTTAAAA
AAATATTTTTTGATTAATTGAATTGAAAATATCGAATCAGTTCGATACTT
TGTAATATTAAATCGATTATTAATTAGTTAAATCAACAATTTTTACAATA
AATAAGCAGGTAATTATTCATCCCAGCCAAATTAAACATTATAAATTTCG
ATCAATATGATTCTGCATTTCATTAAGAAACATTACAATCACTTGGTTCA
TAGATACCTGAGGTAATACATGTGTTGTGGCGTGAGCTTAAAATGATGAG
TGCTTCTTGATTAAATGCTTACCAAAGCTTGAGCTCAAACTATGCTGAAA
ATTCTAGGATGCTGCCTCAACCTCATTCTACAAGCTCAGCCTTCAAGTTT
CCTTTTTTGTACACTGATTTAGGAGAGCATGCTCAGCCATATAATTGCCA
GAGCTCTTCTAAGAGCATTACCTCGTCTTTGTTAAATGCTGCACAAGCTA
ATGAATCTACGATTGGTTCATTCCAATTCTATTCTAATGCAACTGATAGT
CATCATCACCATTGCATTTCCAGTAATAACTTTCAAAAATCCCAATTTGT
TCGCTGCACAACAGATGTTCCGTATATACACAATCCCTTGACTATCCAGT
CTCCTTTGCAGAATGGACCTAATTTGGCTTCTATAGCTCGACCTCCAATC
CGCCCAAGGTTTCTCCCAACTTCAACAATGAATGAAAAACGTGAGTATAG
ATTGAAGTTTAAAGAGCGAATCAAGGCAAGACTTTGTGTTAAAGACCCTC
AGAGTAAACGAACCAAAAAGAAGCCTGGATCAAAGCCTGTCAAGTTAACG
ACGCCAGGAGATATGAGTAGTGGTGTGACTGTGTCAAAGCTTGTTGGTGA
TGCTGAAATTGGTGCACTTGAAAGAAAAGAAACAACCGTGCTTGATAGAT
CTGGTGATGTAGCAAAAACTATAATTAGTGCAAGCAAACCTGGAAATCCA
TTAGAAGGTCCTCTAAAGCTCACTGCCGGGGCTAAGCACATCTTCAACCC
TAGTGGTGAATGTATGTACAGTAGTGACTCCAAGCTGACACACTCAAAAG
TTCCTTTCACTACGCAATCAGATTCTGCAATACCTTTGGAATCACATCCA
TCCAAGATCTACCGGTTTTAGTTGTAAGTTTATCATACAATGTAGAATTC
TTTAATTATTGAAAGGTTGATAATTTGTTATCTGTCCATGTTTCTTAACC
ATCAGTGGAACAGGTATGCTCTCGCAATTTACCGAATTGCCAAATTTGCT
CAAGTGTTGTCGCTGTTCCACCATACCAGGTCATCTTCAAATCAGGAGTT
CTTTTGTTAAATTAAACAGCTCAAATATAGTGCTCCTGTACGAACAGCCA
AGTAGTGCTTCCTCATCTCTTCTTCTTGTTTTTTATAATGACTACAAATC
TCTGCAGTCTATTGTATATGTGAATATCATGGAGGCCGTTTGTTGCTTTG
CAAGATCTTTGATATCATCTTTGTAATTCCCTGTAAGATTAGTAATTATT
TTGTTTTCATCTTAACCATGAGCCAATGTTTGTATCATGTAAAATCTTAT
TCTAAAGGGTTTGCTTAAGGAGCACCTAATTTGATTTTCTCTCA