| NCBI Gene |  |
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| Relationships |
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| The mRNA, XM_017367624.1, is a part of gene, LOC108199688. |
| The genetic_marker, MK009835 8_22566729, is located in gene, LOC108199688. |
| The mRNA, XM_017367626.1, is a part of gene, LOC108199688. |
| 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_017367626.1 | XM_017367626.1 | mRNA | DCARv2_Chr8:22560466..22567127 |
| XM_017367624.1 | XM_017367624.1 | mRNA | DCARv2_Chr8:22560466..22567126 |
CAAGGGTGCGTAGTATAAATACGAGAAAAGGGGCAAATCTTTAAAACCGA
GAAATCCTCTCCATTGTCTCTCTGCTCTGCCCCTAGCCCAGCAAAGCCAG
CAGCTCACTATCACTCTCCACACATATCATATATCTATACATACACTTTT
CAATTAACAACATCATAATACATATAGTGTTTGTATCTATCTTAATAATC
ATCCTCATACTAGATCAGATCCAATAAAGTTAGCAATTGCAAACCCTAAT
TGAGCTTAAAAATGGCCTCCGAAGATCGCGCCGAAGCGTCCGATCCGTCG
CTGTCGAGGAACTTGTCGTCGAGTCGGCTGAATGCTAAGGCAGCTGAGTT
CGTGCCGCGCTCGGCGGAGTTTGTGTATCATAAAGCGCCGGGGAGTGGGT
ATTTTCCGGCGCAGGCTCATGTGAGAGGGAATCAGAGAGGCTTTACGCAG
CAGTATGTGCCGGTTGTGCAGTATCATCAGCCTCAGCAGGCGCCGCAGCC
GCTTGTTCAAGCTGTTTCGGCGAAGAAAAGTGCGGGTGATGGCACGAAGA
CTGAGATTACAGATGAAGCTACTCAGAAACTCATTAATCAGGTGCTGGTT
TTTGTTTGTTGTTATGGATTTTGCTGTGTAATTAGGTTTTTTGTGCTGAT
TTCGAACTGTCTGATTCGTGTATGTTGTGATTATTTGATTGCTTTTGTGA
TATGATTGTTATGGATTTTAGTTGTGATTGAATGCTTGGTTGTGCCCTAA
GCTAATGTCAGCAGCATTTTGATTTGTATGCTTGTTCACGAGGATAGCAG
ATCCTTATTTTGCGGCACAATCACGACAACTTATATGACGATCGAGAAAT
CTGGTTTTTACTAAGTTAACCTATATTCGTCGTTATTTATCATTTAGATT
CTTTTTTTGTCGTACATGATATGTGTTTTTCTGTTCACTGTGTTGCCCAA
ATGGATATTAGGGCCTTTATGTGTGTGATACATACGTCAACCTGGGTTTT
TTTTGGAACTTACGTAACTTCCTTTTTGACCTACTATGATAATAGACAAT
GTTAGCGAAGATAGCTTTTAAATAAAGTCATTCAACATTCGTGGTGTTTT
AAAGGCATTTTTTGTTGGACTCTCGTAATAGACAATCTGGATAATTTTAT
GTAAATTAATATATATATATTTGCTTGTTTAAGGACAAGAACAATTATTA
CTTTAGAAATTTATAATTTTATAAACTAGTTCATTCCAAAATAGGACAAG
ATTTTATATAGCCAGAGCTGGCTGTTGAGATTTCTTCAGATATGATAGGA
AAAAGGTTCATGTTAGATGGCAATTTCTTGTAAGTTACAACTTGTGACAA
TTACCCGCGGCTATTAAAGTAGAACATGCACACCAGGAACCTAGTTATTG
AGCATTACATACCATTTATCTGGTCTTCTGAATGTTATCTTGCTTTGATT
AAACANCCACCCGCGCGCGAAAACCATGGCTTACAATTCAACCAAAACAC
AGAGTTTTTTTTATATGCTCACAGTTTTAAGAGACTCAGAATGTACATAT
CTTTTTTCTTTTTGTGCAACATGAAATCTGGGAGACCATGTCAATTATCA
TCTTTGTTGGATCATTCAAGTAGTTTATATACCATAAATTTTTATTTCCT
AAATTGTTAGTACGATGTTTTTGTCAAACAGAATTCCTGCTAATATATTG
ATTTATCTTTAATAAATCAATCTGCAGGTGGAGTATTATTTCAGTGATGT
CAATTTGGCAACTACTGATCATCTAATGAGGTTCATCAACAAAGATCCTG
ATGGATATGGTACAGTTTTTTGATTGGTATCATAACTTAAGTTTTTATTG
CAACTCTTGTAGATAATACCGTATCAGAGTCTTGGCCAATAGTATCCCTC
CATCAAACTTATTGTGATAAGTATGTATTGCAGAATATAGTATATGAGCT
CAACTTGTTTTTGTAAGTGTAGCACTATTAAAATATGGAAAATGGACATG
TTCTTATCAAGTATGAGTGGGTAGTGACATGAATGATTTTTACTCTTAAA
AGTAAATTGTAGATCGCATAGACTAAGCTCTTCATACCTTCTTAAATCTT
TTAAGTTTTAGGCATGATAGAGGTGAATTTTAAAATTTTGTGGACAAAGA
AATGGATTACGTTGAAAAAACTATAGCACTGGCAAGTAGCAAGAACGACC
TTACCAAAGTGACATGGGGATCCCTATATATATAGGTGTTGACTGATCAG
TTATGTGCTATGTTACTCGGACTCGGCTAGAAGTGTCCGACATGGATACG
TGTCCATGTGTCGGACTCGAGACTATTATGAAAAATTTACATTTTTTTGG
CCGAAAATAAGTGTCCTAGTCCAAGTGTCCATGTCCGAGTGTCGAGTGTC
CGACACGGGTACTTCGAGGCAAAATGAAGAGTCCGAGTAACATAGGTTAT
GTGACTATTTATAACCGAAATGGCTTACTAGCATTTGAGGTGCATGTTTT
TGTTTTTTTTAAATTAAATGATAAAATCTACTGAGTTTGGTACTTTTAAA
TTTGATGCAGTGCCACTCTCTGTTGTTTTCTCTTTCAAGAAAATCAAAGC
TTTTGTTAGCAGTACTACCCAGCTTGCTGGCATTCTGAGGAACTCAACAA
AGCTTGTAAGCTTTTACACTGTAATTTTTGCACGCTCTAATTGATGCTAG
ACAGGTCTTTTGATTTTTTTTAATGCAACAATCTGTAGGTGGTTAGTGAA
GATGGGAAGAAAGTGCGACGCCTGCTCCCCCTAACAGATTCGGATATGGA
AGAGCTGCAAGTAGGTCAAATTTCTCGTTTGATATATATTTGCCTTCTGT
AGTAAAACTGCTACCTGGGTACAATTTTTTTTTTTTTTTTGCTAAGTAGC
TGACCTGGGTACAAGTTTCTAGTACATTGACTGGGCATGTTTTTGAACAC
ATTGTCAATGCGAAGTACTGCAGTACTTTAAACTTGTAACTTTCTTACCT
GCTATTTTTTTTAGAAGTTGAGAAGTTTGACTGAGATATAACGATGTTTT
CGTTCATTTATTGCTTTGCTCTTTCACTTATATCCTTTATTTGTTTTCTA
ATAGTCCCGTATAGTTATTGCTGAAAATTTACCCGAAGACCATTGTCACC
AGAACCTCATGAAGATTTTCTCAGCTGTTGGAAGGTACATGATAATCTGA
TTGATTATTTTGATACTGGATGTATATGTTCCTTTTGCTACTTAATATGG
TTCCTTGCCAGTGTGAAGTCAATTCGAACCTGCCAGCCCCAGCCTTCCAA
TGGTGGATCATCCTCAGGGTCGAAAGTAGCAAAAGCTGATGGAGTAAATT
ATTATAGCAGTAAGGTAAAGTTATAGCAGGTTTTTAATTCGATATTGTAG
GAAGCCTGCTTTACAATTAATTCATGATTCTTAGAAGGAACAGCTATGCA
ATAGCTGACCTTGTTCTCATCTTTTGTCCGTTGCTTTTAATCAACTAATG
TAGACGTACATTTGTATTTATTCTCAGTGTTGTTTTTTGATTGACATATA
TGTTTTTTTTTTAAATGACTTTTGCTACACCCATGTGTCTCTAATATTTG
ATTCTATTATATCTCTTCAGTTGCATGCTTTTGTGGAATATGAATCTGTT
GAACTTGCTGAACAAGCAGTATGTGCTCTCTCTCTCTCTCTCTCTCTCTC
TCTCTCTCTCTCTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNCTCCCTCCCCCTCCCTCTCCCTGATTTATAGATATCTCTTTT
GTTTGAATTACTGGACAATAATGACTTATTAAACTCTCCCTCTCTCTCTT
TGTAGATATCTCTTTTGTTTAAGTTACTGGACAATAATGACTTGTCTATC
ATACAGGTCACAGAATTAAATGAAGAGGGTACCTGGAGAAATGGCCTGAA
AGTCCGTTTACTGAACAAACCTGCAGTACGCCCCCTCCCCTCTCTCCATG
TGCACTTGCATATTATATTTTAACACTTCTATATTTGAATGCTATTACAA
CATAATGTAGTTGGCTCGACATCAAGGGCTAATTAGACCTTACTCAGATG
TGGAAAAGCTCTGCAGCTAGTGTATAACGCTAGTTTAGCTTTGAAAGCAG
TGTTGCCATATTAAGGTTCAAGCTAGTAACTTTTCTAGGATATCTTCCTA
ATCTTTTGTATCAGGCAACATCTGCTCATGTACGAGGAAAGAAAGTTGGG
CAAGGGGGTGAACTTCAACGCAAGGAAGCAGACACATCTACTAGGGAGGA
AGACCCTAATGAGAAACATATCGAAGACCCATCTCAAATGTATGATGGTC
AATCAGCTCAGGTGAACGAGCAGAAAGTATGTTTCATTTCCACCATCTAT
TATTCAGGATATATGAACCATGTATCATGTTTGGTTTTAACAAATATGTG
AGATATGGTAAGTAGTTCATATTACTTCTTTCTTGGAAGAGTTTACTCTT
GAGAAGGGGGCGGGGAGGAATATTTTTATTATTTTTGCATAGATTCGCTT
GCTGAACCAATTTTATCTTGGGGTTTCTTATAGCAATTTATCTGTGAGGA
ATGTAACTAAAAGCTACAACAGTACAACTGCAGTGAACTTCAGGACAACC
AAAATATACTTAACTGTTAAAAGTTAATTAATCATGTTATTGACTTGTTG
CTGTACAGCCATTGTGTTGTTTTGTTGTCTTCCATTTTACAGATGTGATA
ATATGTCTGCAACTTTGTCTCCTACATTTCTGCTTTGCATCCATCTGTTT
TTGCTTTAACCCCTAAAGTTCTAAAGTAATATAGATCAAGGCGTTGGCCG
TTGTCTATTATCCAAGGTTGAGCGAAAATGATCTTAGCTCTCATGCAAAT
GTGAGAAATTTAAAATAAATAAATGAATAAATATATATACACATATAATA
TATATACACAATTGATCAAATAGAAACTAAAATTTGAATAAACTAGAATA
TATAGTAGCAGTTCATTTTTTTTAAATTTATATTTCACAAAATCTTAGCC
ACTTATTTGCACTTTATAGATAAGATATGTATGTGTACCTTCTCTCTGTC
TTGTGATCTTGCCTGACTTTCTTTACCATCTTCCTTCAAGCATAAATAAC
AATACACGAACAAGAACACATTTCCCAGAGCCTTCTTCGTTGCTGAAAGT
CGTGTAAAACCATCATTTATAATATTGAAATAACAAAAAATCGGTGATTT
CATAAAACTGAGACTGATTCTTGTTGTATAAACTGGGGTGATCTTTATAG
TACAAATTGGTGATTTTGGTAAATATAAATTGGTAATTTTCGTTGAAATA
TGTTTGGTTGTACAAGAAACGGTGACAAAGTTTTGTGAGTGGCTATTGGT
TTCAATTCTGATGTATGAGTTGGACTTTTTGAGAAAGCGGAGAGATTAAA
CAAGGAGGTTTAATAGCGGTAGATGGTGAAACTAATGAAGAACAAGATGG
AGGTAGGTCATCTGGGATCACATGTGTTGCTGAATTGAAAAAAAAGGGAG
GATGTAGATAGCGAAAGTGTCAGACAAAAATAATAATTGGCTTGTTTTAC
TATCCATACTTTATATACTTAAATATCTGCTACTGAAATTCCACCCGATT
GAATAATATGCATAAGTTTCTGATATATAAGGTTTCCAGTGGAGTAATAT
TGCATATATTCACTTGCTAAAGAAGTTTTTTGGGTTTTCTTTTATAAATG
TCTACTTGCAATTTATCTGTGAAGAAAGTAACAGAAGTGGACTTCAGTAT
CAAAAATATCCTTCACTGTCTAAAGTCGATTAATCAAATTATAGCAGCAA
CATTGGTTTATTTTTTTGTCTTTCATTAATCATTGTGTAGATGCGGAATT
ATGTTTGCAACTTTGTCTACTATATTTCTGCTTTGTGCACTTTTAAGAGT
AATATAGATAAATTTAGAATACTGGTCTGTGTTATATATGTTTGAGAGTG
GTTAGGTAAGAGTCACGTAGCAGATACGAGTGCTGTTTTCTTAACAATAG
CACTAGCATGTATCTTGTCAGTTTCTCCGAAGTTATGGAGTAATGCCATT
TTCTTTCAAGATGTCATTGATGGATATTTCAATTTTATGCAGTATTCAAT
GCTTATAATTATGTTTGGCAGGGAGAGGAACATGCAAGTGAGAAAGAGGG
TGGACGTGGCAAGGGGCGTGGACGTGGACGTGGCAAGGGGCGTGGACGAC
CTCAACACCACAATCATAATCAAAACCATCGTGGAAATCATGTTGGAGGT
TCCTCTTCAGTCCATCCTGTCAACTCTGAGCATCCCACTGTTTTCAAGCC
ACCTCCTGGACCTCGCATGCCAGATGGGACTAGGGGATTCTCCATGGGCC
GGGGCAAGCCAGTTGTTGTATAGTTCGGATAAAGAATCTCCTATTCTGCA
AAAAGCATGGGTGGTCCTCAAATTAACTAATGTTATGCTGTAGCTCTATG
GAGGCTAAACTTATCCTTAATGCAGTATTTGTGGTAGGATGTCATGAGGT
TTGGCCCAATGTCAATCAAGTAGTCCGGATTGAATAGTTCTATTTACCTT
TTTTCCTGTGTCATATACTCTGAAGCAAAGGATTTCTGATTACAATAACC
TTTTTTTCTTT