| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017363169.1, is a part of gene, LOC108196070. |
| The genetic_marker, MK009345 1_13265180, is located in gene, LOC108196070. |
| The genetic_marker, MK007956 1_13271946, is located in gene, LOC108196070. |
| The mRNA, XM_017363177.1, is a part of gene, LOC108196070. |
| 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_017363169.1 | XM_017363169.1 | mRNA | DCARv2_Chr1:13264496..13271985 |
| XM_017363177.1 | XM_017363177.1 | mRNA | DCARv2_Chr1:13264496..13271985 |
TGCGTAATTACTGCACATCTAATAATTACCGTGTAATCCGTTGAAAACGG
CCAAGCTTCCAACGCACACAACTACGAGTATCAAGTACAGTAAATAAATT
TGAACCCAAAATTACCCCTACTGCAAATAGGCGGGAATATAAATCATCTC
CTTTCTACTCAACTCTTCCAAGTCCTCAACTTTCCATTTCACTCAGACAT
GAACAACGCCCAATCTTACAAGCGCCCTGCCTCGCCACCGCAGAAGCATC
ACACCACGGCGGCGATCGACCAAACTTCACTTTACGAAGCAGCAGCAGCA
GCAGCAGAAGCGGTGGCTTCACCTTTCGCAAAGTGGAGACGCCCCGCGCT
GTCACAAGAATATTTGTCACACTCTACAAATCTCTGTGAGTCTACAAGAA
TTTGAAAATATAATCTCAAAAATTAAAAAAAGTGACTTTTTGCTTAAAAT
AAAAAATCGGAACATTTTAGAGAAAAGTTAACATTCTGCTTGTCCATGTT
TACACAAACGTGTCATTTTTTACCAAAAGTTAGGAGTTCAATTTTATTAT
TATTATTTTTAAATTTAATCTCCGATGCTCCTGTTTTCATCTAGGGTTAC
ATTGTCAGCTGTCACAGTTTCCAGGCTTTATTTAGTTTAATTTTTTGATG
TAATTATTTACTTGCTGCGGACATTGTAGTATTCCAGGAGCTGGAAGTTG
ATTACGTGATCGGTGAAAGTCATGAGGAGTTGGTGCCTGATTCTCGCGGT
CCAGCTGCTATTATTCGAATCTTTGGAGTCACCAAAGAAGGTATACTGCA
ATTCTTTTTATATTTTCAGAGACTTTGTATCATACTCGAATTTGATATCG
GACATCCACAAGTTATTTATGCTTTTCAGAATTATAATGTGATTGCTTAG
ATACGCGTTTTATTGGTATTTGTTAGGTCATAGTGTTTGTTGCAATGTGC
ATGGATTTGAACCTTATTTCTATGTAAGTTGCCCTCCGGGGATGGAGCCT
GATGGCATCTCTCGTTTTCATAAGATTCTTGAGGTATTTTTTTGTATGAA
ACACAAGCAAATATATTAGTAGCGGTAATTGTGAGTTGATTCACTATATG
TGTACTTCTTTAATGTTTTTTAGGGTAAGATGAGAGAAGCCAACAAAAAC
GCTCATGTCCCCAAATTTGTTCGCCGTGTGGAAATGGTTCTGGATAAGAG
CATTATCAATCGTCAAGAGCTGGGGCCTCAGCCTTTTCTCAAAATCGTTG
TTGCCTTGCCAACTATGGTTGCTGGTTGTTGTGGTACGTTTCATTTATCA
ACACTATAAGATTCTTGTATTTCATTAATTTGGTACGTTAAAGATAGATA
TTCTACTTAGTTGATGGTGTTACATGTTTCACATTAATTTGGTATGTTAA
ATATAGATATTCTACTTGTTGGGCATGATTGCAATTGTATTACATTACTT
GTAATGGAAACACTTCTTATCTATTATTTTGTGATCCATAAGGATAAATT
TTCTCTGAACTAAAATTAGCTAAAGTAAGAAACTTTTTGTGTAATGATGA
ATCTAAGACTTCGGCAAGGCAAAACATTTTGCTGCTATAATGCCTATTGA
TACATGTTGAATTTTATTTCTACTTCTTGTCAAAATGTGTCAGGTATGCT
TGACAAAGGCATACAAGTTGAGGGTCTTGATATGAAGAGCTTTGTGACAT
ATGAGGGTAGTATATGCTTTGCTATGAGGTTCATGTTTGACTGCAACATT
GTTGGGGGGAACTGGATTGAAGTTCTGGCTGGAAGATATAAGAAGACATT
GAAAAATATATCTTATTGCCAGTTGGAGTTTGATTGCCAGTATCCTAATG
CATGGAAACACACTGAAATTTATTTATATAAAACCTTCAATGGGTGGCAT
TATTGCATATATTCTGTGGAATAAATTTTTCTTGACACATTTGAAAGCTT
TTCAGATTTGGTAACTCATGTTCCAGAAGGGGAATTTACCAAGATGGCTC
CATTTCGTATATTGAGTTTTGACATTGAGTGTCCTGTTCGTGGAACTCAG
TTCCCTCAAGCTACTCATGATCCTGTAATTCAGGTATTATTTGTTCCCGT
ACCATTAATATTATATTTGTAGAACATGGAATGATGCAAAGCACATTATT
AGCAGAAAATTTATATAAAAAAATCATTCGAAGCTACATAATTATCTAGA
AAGCTACATAGCATATTCTCGGATTTTATATCTCTCTCTCTAAAACTTAG
GGGTATCTCATTTTTCTTCATTGCAGGTGGCCAATATACTTACTCTGCAG
GGAGAAGCTCAGCCATTAATTCGGAATGTAATGACACTAAAATCGTGCTC
ACCAATAGTTGGCGTAGATGTGATGTCTTTTGACACCGAAAAAGAAGTTT
TGCTAGCTTGGAGGGTAATTATTTCTATTCAAGCTGCTCATTTAAACTTT
AACCTGTCTGATTTTAAATTTGAGTACCAAAGGCATATAGCATTATTTGC
ATTGACAAGCCCTTGTCTACTTGTTAAGACTTACTGGTTTTTATCTAATT
ATTTTGTAACTTTTTGAACCTTTTAATTTTAAGTACATTTATTTCAGCTT
TCAATCGTAAGAAGTGCAAGTTGTAATAATTAAAAGTGAACATCAAGCTA
TTTCTTCTTGAATAAGCCAGTGAAATGCATGCAAAGTTTGGAATCATGTG
AAAATATAACATGAATTGTTTTGCTCTGATTTATACATCTTGCTGGAATG
CTAACCATTGGCTGTTTTACTGCATCCTAGTTGTAACTTATGTCCTCTTA
AGATCTGTCTATAAGGCGTGCGTCTTATTACAAGAAAGCATTCTGTTTTC
ATGAAGTTTAGTAGTTTCACTTGCAAAAATTTGCCACTGCAGGATCTCAT
ACGTGAAGTGGATCCAGATATAATTACTGGATTTAACATCTGCAGATTTG
ATTTGCCGTATCTCATTGAGGTTGGTGAACACTTTTTGTGGTTTCTTTAC
TTTGACAATTTTATACAACTTTCCATCCTATTAATTGTTTCTTCAAAAAT
TAAAAATAACTCATTGTGATGAGTTGAGCGCTGAATCAATGTTGCGTCAG
GAATAAAAGGCATGTTCCGTCCAAAAAAGATAAAAGTCACATTGTGAAAT
TTTGCTTTGTTACTTGAAAAACTATGATGTCAACTTCTATTTGCTGCAGA
GGGCTGAAGTTCTGGGAATAGCAGACTTTCCGGTATTGGGCCGCGTTAGA
AATAGCAGGGCCCGTCTCGGCAATGCAACCTTTTTGTCAAGGTTCGATGT
TTAGTTTGAAACATTGGTTTATCGTGCAACCAAATTGTATATGTATTCCT
TTAATTCTTCTGCTATACTGGTCCTAAAGAAAACTTCCCATGAATGATTT
TCAAGTCAAAATATAGTTTAAGATTAAGTAGATTAGTGATCAAATAGGGG
ATGATAACGGCAACATCCTTGGTATGTGTACCTTTATATATACATTATTG
TATTAGAGCTGAACTATTACATATTTAGTAGTTGATAGGTTGATTAGTCG
GTCCTTTGAGCTTGGTTAAAATAACAAAAATGTGGATGGATTGAATCTAT
TTTAGCTTAAAGTAGGAAATATACAAACTTTTAAAGATAAGAACATAATT
TATAATTGTGAGTGGTTGACATTTTGGGACTAACTACAATAGTTTTCTCG
TGATTTTTTAAAAGATGAGGTCTTAAATATCATATATAATTGAGTTGAAA
AAGATGTTAACTTGTGAAAATGATCATATTAGCATAATATTTTGGCAAAA
TATATAATTGCCCTAAAGAGATTGAGTTTTAATAAGCAAGTTAAACTTCA
GTTATTGTAGTATAGTATGAACATATGGGTTTGTCTTATAAGTGCTAGAA
GGTTGAAAATTGATATGTTTGATTCTTTAATTAAAAAAATTATCATTTGA
CTGGACAATGATATTGGTTTAGAATATTATATTCTGTTACTGGCCGAGAT
TTACTTTCTGCATCTCCTGGAAAAATTACAGATTAGCTGATTAGTAGTTT
CTTGCAGACGGTTTGGAACAATGGAATGTAGAGAAATTACAGTGGAAGGG
AGGGTTCAGATTGATTTATTTCAGGTTACACTAAACCTTTTTTTTTTTTT
TTGACAGAACTAAACTTTTATTTTAATTAAGAGAACATCTATCTTATGTT
CATGTTAATGAACTAGCAGTTCAATCATCCACTTGTCCCTTACATATGTA
CAGGCTATACATAGGGATTATTTGTTGAAGTCGTACAAATTGAATGATAT
TGCTGCTCACTTTCTTGGGGATAAGGTAACGCTACTTACCTTACGGTTTA
CAAATTTTTAGGAAGGATTAATTTACACTTATGTATACAATCATTATAAC
TGGCTTACTGCCTGTCATAATATGTGAATAGATGATTTTAGAAAAAATAT
ATATTCTCCCGTTTTTAAAATATTTCAATTGTATCATATATATGTGTTTC
TTGATTGATTTTTTATTTACTAGTTTACATACTTCTGGTCTTTTAAGTTT
AAATAGTATTATTTGTTGATCCAATATCAATCCTTTAATCTTCAGATCAT
GTCTTTGCCATGTGTTTCTCGTGTCCGTTTGGTGTTGGAATGTATTATAT
TTAGTTATTAGCGTATAGAATTCTATAGGGATTTTCTTAGTACTAAATGT
TTCCTTGCTCGCATACTTGTGAATGTATTTATGAATTATACTTGTGTTGT
TTCATCCTATTTTATCCTATGTGACACAAAATTGTTTCTCTGAATTTAGA
AGCTGGAATTTTTGTTCTTGTTATAGCTAAATAGTCCTTAAAATCAGGAT
CGTAAGTCATACATTCAAATATTTCAGCAGATATTACCAATTTTTTTTTA
GAACTATTGTTTTTCATTATTAAGTGCAGTAAATACAAGATTCATTTTTC
AATCAGCCTCCAAAATTATTTATGAGTGACCCATAACCACTTGATTGTGT
CCACTTTAGTTATAGCTGACTTGCAGTGGTGGCTGTTGCACATAAATCGC
TGATTTATGTTAAGAACCAAGGTTCATACTGGCCAAATAACACTATAGTT
TTGCTTTTGTAATTTGATATGTAAAAAGTGTGTGCTTCTGAACTATTGGA
AGTGATTATTCGTGCATATGCTTAAGAACACACGATATGGTCAGTATGAT
CATTCTTATAAGAAGAATGGGTTCATGCTTATCGTTTTAGTAGTTATTAA
ACCCCCAACGCATTTGGCTAGAAGAAGTGTTAGTTACTAGTAGGGAGATA
ATTCAGGCGTATTGTCAACATCTGTCAAAATCTGAAATTTTCAGAATTCC
TACTAAAAGGGATTTGAATCAGTCACTAGCCCCGTAACGTGATAAAGATG
TAGAAACTTGTTATATGTATTATAATTGGGTTTGAATGACTGTTGCCTTT
AAACTTAAAGAATGTAATTAGCTTCAGTGATTAGTCAACTGCATCTGAAC
GTGTAATTTTAAAAGCTTGTCAGAGTAGATAAATTGTAATATATATGCGT
CGAGTTAGACTTGACCGTATAGATAATGAATGAGCTGAATCTGTCAGATT
CCTACAAATTTGAAATTACTGGGGTAGCGGCGTAATCCTGTATTAATAAA
TAATAAACTGAAAATTTCAATTTCTTGTCACTGAGTTCACTCCAGCAAAA
TATAATATGCTTGTAAATAGGCCTTTGTCCTCTCATTTGTGCTGGCAGTA
ACTTCTATTGTCTCAGTCATTTCCTTTGAATTTTTCCTGATGCATTGATG
AATCTGTGTCACTAGATGTCTTTTTCTGGTCAATCTAGATGTCCTTGTGG
CTTGTGCCATTGTGTTTGTCCTGGGAGTTTTGCTGCAAGTCAAGGAATTG
ATAGGATGAAGAACTGTCCCTAATGTTTTTTTCTTTTCGTGGTGTCTTGA
TAATATGTCTTCAATTTTTTCTTGAGAATTTGATTTTACTCAAATTCTTT
ATATGCGACTGAAAAATTGTGTTCACTCGAAGCTGATATATATTGTTGAC
AATGTCTTCTGAGTGCAGAAAGAGGATGTCCACTTTTCACGTATTTCACA
TCTTCAGAATGGTAGTGCAGAGACGAGGAGACAATTGGCTGTATATTGCT
TGAAGGTCGTAGTTTCTTTTCTAAGTCGACTTTTCCGCCAAAAAATTGCA
TTGCTATATATATATACATCCATTCATTGAATGAATCCTGTAAGTATATT
GCAAAGCCAGTAAACTTTGTAATACTACCAAATCAATTTAACGACAGACA
AACATGCAAGTTACAGAGCTTATCTCGCAGAACATTTGAGGAAGCTTTAC
AGGAATTCTTATTTTAATTCATTCTTTGGTCAAAAAAGAAACATATTGGT
CAGTGGTTAGTATGGATTGATAATGATTCAGAGCATAATTAAGTCACAAG
TGTTTCAAGATTTGTGTGTTTTTACTATCTACCGGCTCAGTTAGGATAAG
TTCTATCATACTACTACATTTCTTCGTCCTTTTTTTCAAAAAAATTTACA
AGTAAAGACAATTTTGTTAGTATGACACATGCCAGTATTCTCACAATCAT
AGGGGTTGTTTTAACCACTGTTTTCACTTATATTTCGGTTTTCATTTAGC
TCTGCATGAATACCATCTATTTTAATTAGAGTTAGAACATATAAGTCTTC
TATATGTATTGTGGAGTCATGATAATTGATAGCTCTCCTGTTGCAGGATG
CTTCTCTGCCTCAGCAACTCTTGGACCACTTGATGTATGTTTCCAAACAT
GCGGAAATGGCTAGGGTAACAGGTGTCCCTATCTCGTATCTTCTTTCTAA
AGGGCAGAGCACCAAGGTTATTCTCAGAAACTCCTAACATGTTATTTAGT
GGTCGTGATAAAGTATTTTCATGTGTTTAAACTTGAATGTTCATCATATC
CTCAGGATACTCCTCAACTTCTTAGCAAAGCAAAGAAACTGAATCAAGTT
ATTCCAACTGCAGAACTGCCAAGACAAGGAACATCTGGCAGAGCAAATGT
AAGTTGATCATGTTCATTGTTAAACACCTAGAAATAATTTTTTTGATGAT
AGACTTGTGAATCTCTTTCTTTTTCAAATTGATAAACATGCACAATAACA
GATTTCCGAAATAATGCTGCATTTTCGATATCTCTTACACCTTATATATT
GTCTCATGCATAACATGATTGATGTTGCTGGTTAGAATTTGTAGGCTTGA
TGGAAAGTTTGACAAGGAAATGAAGACTTGTCAATTTACTTTTGGAGATG
CATCTGAAACTTGGTTTCTTATTGTTTTTGGAAGATGTATTTCAAATTTG
GTTCTGTTATTGTTTTTATTATTAGACAACTATTACAATTGAATGCTGTT
CTGGCTTGTTATTTGCGATCCTTTCATTCCCAGCACAGTGTCTTTTCCAT
ACAGCATCTTTTATATAACAATTTTAATATTTTATGTTA