| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017375087.1, is a part of gene, LOC108205226. |
| The genetic_marker, MK003292 K0736, is located in gene, LOC108205226. |
| 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_017375087.1 | XM_017375087.1 | mRNA | DCARv2_Chr1:35056762..35063358 |
TGAAGACCAAAATCAAAGTTGCTTGATACATAAACACAGGGTAAGTATTT
GGGGGCCTAAAATGGCGACCGGCGAAGAAGAAGAGAGAGTTTTGGAAGAA
CAGCTAGAGATTCAATTACATGAACACCGAGACTCCCTCTCTGCCATCTC
CCATGCCCTTCTCTCCGACCCCTCCAACTCTGAACTTCTTGCGGTCTCTC
CCTCTCTCTCTCTCCCTCCCTCCCTCCCTCCCTCCCTCCCCCGCCATCCT
AGAATGATTGAGATTAATTATATTGCCTGATAGGGGAGTTTGTAATATTT
GCAGTTCGGATTTATGTGTGTAAGAATATGAATCTCTCTCTCTCTCTCTC
TCTCTCTCTCTCTCTTCCTTGCACACACACATTTCCTTTATTCTTCTACT
GTCTCATGTTCTATTTAGGTTTGTCTTAGATGTGTATGTAAATATGTTAT
ATGAATTTGAATACAAATCATTATTGGGACATCCCTTAATTATATAGTTT
CTTCAGTTGCGACTAATCGTGATTGATGTTAAGCACTAGCTTCCGGGAAT
TAAGCTGATATTCGGATTATTTTAAGATCGGATAGGGTATATACTAATGT
GCATCATGTAAATCAAATTAGTTTCGGCACTGTATGTAACATGAAGAAAA
GTTAACAAAAAAATGAAGACAAAGACGAAGTTCCTGACTTTGTATGTAAC
ACAAACAAGTTTTCAATGAACCTTGCTCCTTATAAACAAGTTGTCAAGAT
CTTTTTTTATTTTAAACTATATTGTTGCTGAGTGAAGTATTCAGTTTCTC
AGGCCCCATAGCCAGACCCATGACATGCCTGGTGAACATGGGTTATGGGT
ATGAGCGGAAAATCGGAGAGTTCGGGTACTTATCAGAGATGCAAATTGGT
TGGTATCTGCTAAGTGCTAGTTGCGCTCGTGGTTACAAATGTGTGCGCGA
CTTGTCCTTGTTTAGTTCATATTGAGGTTGAAGGCTAGTACATTAGTTGC
TGGGAAATAATATAATTATCCATGATAAGATATAGCTAATAATATACTTC
CTAATAATTAATTTCTTCATTTGACATGTAGTTTGATTTAGTAGCTCCTC
TTGTGGTGCCTCCCATTGCGATTGTCCAACTGTGGCCTCTGCGCTGTTTT
TGCTGCTAGGTTTCTAAGACCTGACTATCGCTGTCCAAAGCTCATGTCCT
TTAAATAACAGCATGTTAAATTTCCTGATGACCTTTTCTTCCTCAGCTAA
AAATTTGGTTGCCTTTTGTTGAAGTTTTATCTCTGTTGAAGTTCATCTCT
GTCCATTATCTGATTGGCTTACTGTACTTGCCTTCTTGTATTTTCTCTCT
ATTTTGACTTAATAACTGGTTATCATGAAATAATTAGTCCAGTGTTCAAA
CTTAATATTTAACGGAACAGTTAAACTGGTTATCATAAATTTGATACTTC
TTTGTATGGATTCTAGAGCTGAGACATTAGTCTTCAAGTAAAGAACTATG
AGCGAAAGAACACAACATGATTTTGAAAATTTGAATAGTAGAAATAGATA
TACAAAATTTTTTTTAGTGGGGAGGGAGGGGGTTGATGGCATTTAAGAGG
GTTGGAAGAGAGCGCTGCAAAGGGATATTGAAATTTCGGACAAAATAAGA
ATTCCAAAGCTATATATCTCTTAAATATATACCAAACTTCTAACTGAGCT
CATTAATTAGTCTATTTTTGAATAGTTAATGCGGTAATTGTTAACATTTG
TCATGCAAAAGATTTACTTTGACTGACGAAGCAAAAATGAAATTTGGTGC
TCAATTCAACTTCTGTCTGCTTTATATACTCAATCTCAAATAACCTTAAT
TATGGGAAACAATAAATTAAAGCTAATGTACATTTTAGCGAAGTAGACAG
ACCAGACTGCTTAACATTGCAGTAAATCTATTTAGCAAAAAAAAACAAAA
CAAAAAAACATTGCAGTAAATCTGTCTGTTTTTGTCAATATGCTGTCTAG
TTCGCCTAAGTCATCCAAAAGTGTCTGATTAGTGGTTAGTCTGGTTTTTT
TCGAAACGTCTGTCTGGTTTGCTGGTCTTGAATCAATGTATTCTTCATCT
TTTTTCTCACATTGTACAAGTATATATCCTTAAAATTTCACTGGGCCTAG
TTTTAAAACTATGGTTTGAGGACAAAGTTATTGCTTTCATTATATATGTT
TGCTTATATTATTTGCTTGATGACTCTCGTCTTTGTTGGTCCCTCACTCA
CACACACGCACACACATATCGTTATTCGTTTGTAGATATATATGCTTTTC
TTGAATTTCCTGAAAAGTTTGTGTTTCACTAGGTTCAAGAGGAGCTTGTT
CAGGCAAGTAAAGATGCGGAAGATGGGCTTTTTCATCTCAAGCGTGCAAG
GTTGTTGCGAGAGACTGATGTTGCCCTACAAGGTACCAAATCTACTATCG
AGGATGTCATGGTTGAGTCTCTTGATACACCAGATCTCCAAGCAGAACCA
CTGAAAGATCCGAGTTATTCAATCGGATCTAAATGTAGATTTAGACATAC
AGATGGACGATGGTATAATGGTGTAGTAATTGGTCTAGAAGAGTCTGATG
AAGCAAAAGTTTCTTTCTTGACTCCAACATCTGAAAACATGCTGGTGAGT
ATAAGTTCCAGATCTCATTTTTGCATACTGCAGTCGCATCATGAATTGTT
TTCACTGTTGCTACCAAAGTGAAATTTCTCTAGACAGATACAGAGAACCA
GTGATTTATTATTATTATCTCCGGATGAATAGTTTTTATGATCGGCAGTA
TCGACAACTAAATTGTAGATTTTGTATTGTAGTCCACTATAACTGCACAT
CAACATTTGCATTGGACTAAATTTCTGTAAAGAACTTATTAGTAGAAGAA
TGAGCTAAAACCGGTTGACCTAGATATGTTTGACAGACAAGTATAAGTTT
GTTATAGTTTGTAAAGAAACAATGTTATTGAATGTCAAAGAACATTACAA
GGACAGTAATTACTAGATAGCCCTTGCGAGCTTTACATTTGGCATATCTG
GAGCACAGGCCAGATCTTTTTTGGTGCCGCCTTTCTCTCAGGTACTCAGT
TTGGGGAACTTAAATCTATAGTTTATATAGGAGTCTAGGGATAACAAGGA
TCAGGCCTAAGAGTAGCTAGCTAGTATGTTGAGAACTTAGAGAGGTTTTG
GTGATAATGCCTTCCTTAGAACTAATATTAAACAGAAAAAAGTACTTTCT
GTGAGGCTTAGAAGTTCAATATTTATTAGAAATCTAGTAAACTTGCCAAC
ATAGTTGACCAACTCTCATTTAAAAAAGTCAATAATATTTACTTCACCGA
CTTGACTAATAGTTATAGTACTGAATTAATACTACAGATTTTCCAAGAGT
TCGAGCATTTGTAGACTTAAAAAAGCAACTCCATAACATAGTTGATTAAT
TCATATCAGGACTTAGATGATGCTTATAGTTATCTTATAAAATGGATGGG
TCAGCTTAGACATACCATCCATAAGATCATTTATGCCCTCATGAATAAGA
ACATATTTTCAACCATCTTGATGCATAGAGAATTTGTACCTAGATTTTAC
TTTCTGTTAAAACAACTGTGTGATATAAAACCCATGAGCTTACTTGATTA
CTCCCACTGCATTAAGATATTTCTCTGGCAAAAAAAATTAGTGCCCTGAA
AAAATGTACTCCCTTTGTCCCATTTTAACTGTTGTATGACTTTTTCCAAG
TATATTGAGGTGTAAAAATATTATATCTACACTCAATAAAAAATTCAATT
CTTATATCAAATAAAAGTTTAGATTCTAAACTTTTATTTGATATAAATTT
TGTAAAGAATAATCATGTTTAGATGTGATTTTTTAACATCTTAAAATACG
TGTAAAAAAGTCAAAAGCAGGTAAAGAATAATCATGTTTAGATGTGATTT
TTTAACATCTTAAAATACGTGTAAAAAAGTCAAAAGCAGTTAAAATGGGA
CGGAGGGAGTACCATTTTTTTTGTTCATTCAGTATTTAATTTTGTAATTC
ATTCAGAAACTTTAACTATTGAGATGAATACTAATGTTTATCAGTATTTT
TAATTGTTCAGATAGATATCATTTTAAATCTGCTAAATGTCTCCTAAGTC
ATACTAAACAAGCTAGATGAGGCAAATATGACTACTACCAATAAAGAATC
TGAGGATATTAGTTTGACTAGAGTCTATTATTCTTTAATCAAAAGCTTTG
GGCCTTGGGCTTTTTCTGCATAGCAATCTTTCTTTTTAATCTAATTCACA
CCATTCTTCCATTATTGCTATGTCACTTAACATATTTCATCCTAAAATTG
AGGTGGTCATTTGATCACCACCACCACTCCACCTCCAAGTATCAAGAAAT
AAATTGCAGAGTTCTGATTATCAAAGATTGACATCAGAGTTTGGTATTGC
CTTGTGAGTTCCTAAAGATTTGGTGTAGGTACTCGGTAGACTCTCGTTTC
TCCTATAGAAGTGTTGAGTATTTCCTTTTATGAAGTGTAAAGGACACCGC
ACTCAAAGTGTCTGTGGAGCCTTGTCCAAAGGTTTTATGCTACCATGCTA
GTGTTACGAACTCTAGGCGTTACCTTGTCCAAAATATTTCAAGTTATCCT
TCACCTTGCTCTGAATTGCTTCTCTCTTCATTCACTTTTTAGGTTGTATC
AGTAAACTGCTAAATATTCAAACAAATTTCTTATTAGTTATGCATAGTTT
TTCCCTTTTATCCATTTGAAGTGACATGAGTCTAGACAATAGACATAGAC
AATAATTGTTAACTTACTAGATTAAGTATTAGAGATCAAATTACTAATGC
TGGACCACGCAAGTGCAGATGTGCAAGTTCTTTCAACAGCAAAGATGTCG
ATTTGGTTCTAGTTGCCGCTTATCACATGGTATGTTACAGTTGTTCTATG
TAACTGCAAGTATTCCCTAAAAAACAATAGTAGGCCTCGTCCATTCTTCA
AAACCTGTTTTTTATCTAAGAAAGTCACATGAGAAACACGTGTGCGGTTT
GAGTCTTCTTTTTGGGTCACCTAATAATTATATCGCGAGTGATGTTTAAT
CATGTGGTTTGGTGGTTATATTCAAATACAGGTGTTTTATATTTTTAAAA
AAAAGGGTAGGTCTAATGTGTCGCTGTTTTTTTTAATTGAATTTGCAAAA
TTTACTAGTATTCCTCGTATTTTGTGTTGTATCTTTTATCGTAAAGCTTG
CTGAGATTGCCACTTTATTTAAGATCCCCTATGATAAACTGAATATTGTT
ATTTGTTTTGTAGGGATTGATGTCCCAATATATTCCTTGAAGACATATAG
GCCCACAATTTGGGATCAATCGATGGCGGGGTCTAGTATTTGGGCTGTCG
CTGACAGTAAAGCTGGCATTTGGCGGAAGGCGGAACTTGAATTATGGGAT
GACAAACTTAGTCTGGCGAAAGTTATTTTTCTAGATGATGGAAGCTCTTT
AAAGCTTGGAACTGAATCTATTTCATTGTCTGCATATGCTCAGTTGTCTG
ATGAAGAAGACAACTCAAGCTCTGAGCATTCTGATTATAGTGACTATGAC
GAAGATAACTCAGAAGGTTTAGGGTTTCAGGAAAATTCTACCCTGCAGAG
GGGAATCCAGACTGAAACTGCTGTTTTTGCGAAATGGGAGAATCACACTC
GTGGCATTGCTTCAAAGATGATGGCTAGTATGGGTTACTCCGAAGGTATG
GGTCTTGGTGCTACGGGTCAGGGAATTGTGGATCCCATCTCTGTGAGAGT
CCTTCCATCAAAGCAATCTCTTGATCATGCACTGGAATCTCGAGAAAATG
GAGAGAAAAATGATAACACTGAAAAGAAACGAAGCAGAGGTGGAAAGAGG
AAACGCGACAAGAAATTTGCAGCAGCTGCTAGGGCAGCAAAAGAGGCAGA
GGAACCTAGCCCTGATGTCTTTAGTCTTATTAATACCCAGCTTGCGAAGC
ACAGTGAAGCCTTAAATGGTGGAAGGTCAGGAATAAATCAGCAGAATAAG
TCCTCTAAGAAGGGGAACAACGAAGATAGGCGGGCTTTAGTTGCTTATAC
TGATGAGGTGAAGGAATTGAGAATGCGAATCGAGAAGCTGGAAGAAATGG
TTACCCGAAACAAGAAAGAGAAGGTGGTATATGAGGCTGCTATGAGAAAA
CTTCACGAGACTCGGAAAGCTCTGGAACGGGTTGAGGCGGCTCATGCATC
TGCTTCAACTGCACTTTCTAGTGAAGAAAGGGAAAAGAAATGGCTCAAGT
TCTAGTAGTTGCTGAGTTTTATATCCCTATGTACTCATTGCTTGTTTTTC
ATAATTAAATCTGATCTGTAAAACTAGAGTCCTTTATTAAGGAATGGCGT
CGAATCCGTGTAGTTTGTATGTTTGCAATTCTACAGTTCTAGTTATCCTG
TGGAGCTGTGTTTCGAAGCGAGCTTGTGGCACAAGACTTGAGTTTTGAAA
AGATACTATGATCATTGTAAGTCATTGCCAGTGGGTCAACGTCCTTTTGG
ATACCGTTTTATGCCACCTCATTACAAAGTGGTCACTACAAAAAAA