| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017387135.1, is a part of gene, LOC108214896. |
| The genetic_marker, MK009992 3_6480367, is located in gene, LOC108214896. |
| 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_017387135.1 | XM_017387135.1 | mRNA | DCARv2_Chr3:6474743..6481883 |
GACACAACCCAACCCAAATAACAAAGATATATCCAAGTCCACCGCCAAGT
CGACCCCATTCTCATCTCAATTGCAAAATCTACTTCCCCTAGGGTTTCAA
ATCACTTCAATTGCATCTCATCACTCGCTCACTCGACTCAGCAATTACTG
CTCGATCTCGGAAATGGACTCGCGCGAATCGTCTTCTTCTTCATCTTCAC
TCCCCGAAGAAGACGCCTCTCTCTCTCTAGCCAAACAAGCTTCTCTGCTC
TTTCACTCCGCCAACTTCGCTGATTGCCTCACTGTCTTGCGTCAGCTTCT
GCTCACTAAGCCGTCCGATCCGAAGGTAATGATTCTGCATACACGCACTT
GTATGTGTAGATGATGTGGATTTGAATTGGAGTGTGAATTGGTTGTGTTT
TAGACTTCGATAGGGTGTTAGTTGCGGCGAGTTGTGGATTGGTTGAATTG
TTTGTTTCGACAAATGATTTCTATAATTGGTTCGTATCTACTGTATTGTT
TTGTTAGGAGATATGTTGAGTTATCCAATAATAAAAAAAACAAGAAATGT
TCTGTAAAAGGAAATGTTTGTAAGTTGCGGTGGTGTGATGCTCGTTGTGT
TTGATGAGCGGTGTTTGCTGATGATTTTAATGCATGTCCTGAGTGAGATA
GTGGCGTGAAGCATAACTCATGTGTGTTCATTTACTTTTTATGTTGGATG
GCCGAATATCGACAAAAATGAAGGCATATTGAAGTAGAAAAATAATAGGA
AAGGGAAAGATATAATAAATTCTGTGTGCTGCTTGGTGACGGGTAACACC
AATCTGTAGTGTGACATCTGTGTTCTGACTGAGAGTTCCTTTTTTGGATA
TTTCACTGCTTTTCTTAATCAATTGCGTATATTTGTTTGTTACACCTAGT
AGTGCATACTTCCAGTGTCTCAGAAGAGTATATAGTCAGAAGTTATTTGG
AGCAAGGCTGAGTTGTTAATTTGAAGTTGTGGCAGTGCTAACTACCAAGG
TTATCACGGTGCCAAGTCGTGCCTCGGCGCCCGGAACCTTGGAATCGACT
AGTCAACAAGTCGCCCGACTAGTCGTAAAAAGTCGACAAGTCATTCATAT
ACATATTTTTGCTAGATTTAATAAATAAAATATAGTTGAACACACATTAG
TTTATAGTTAAAATCAAAAGTAAAAGATAATAAGCAACAGTGAGATGTAC
AGGACATATCAGATTGTTAGTTCACATGTAAAGTGAAGCAAGAAAGTAGT
GACAGGAAGGAAATAATAATGTGAAGCTGAAATGATACAAAGATAGATTA
GGGATATAGTAATATGTTGAAAATGATACAAAGATTACGTAGCAGGAGAA
GGTAATTAGGACCTACACACCGATAACAAGTCTATTAGTCGGACTTCATG
TAGCCGCCCAAAGCCTTATCTTTATTTTCAGAAAAAAATCACATAAGATT
TTGCTGAAGTTTTTGGTCAGACCAGGTACCGGGTCGGGTAAAACTCATTA
GTCGCCCGACCAAATAAGTCGTTGCTTAGACTTTTTCTATAAAACGGCTT
GAACTAGTCGACGACTAGTCGTCGACTTGATAACAATGCTAACTACTTAC
AATTTTTATACAGAAATTAGTGTCCCAACTTTAATGTTTGGTATAAGATG
ATGTTAATTTTATTGCGGTTTTTGCAGTTTATTTTTAATTGAAATAACTA
GACAATTAGAATGCAAGGCGTTTTCTTTGTAATCCTCTGGCTTCAAGTGA
TTTCATTTTCGAAGTAGTATTTTTGTGGCTCTAATTTATATTAATGCTTT
CTCTATCTATTCATATTTATAATATATCACAGGTTCTCCATAATATAGCT
ATCGTAGAAAACTTGCAAGATGGATTTTCAAATCCGAAGAAATTTCTCGA
GGTCCTAAATGATGTTAAGGTATGTGTTAATATGTTGGTTGTTGCTTTAA
AGGTTATAGTCTGCTTGTTATTGTTCCTTGTAAATGTGTGCGTGTCATTA
CCTATGTGGGTAGATCTACATGAGGTATCAGCATTTTTTATCAGACCATC
TCCAACGCATGACACTATTTTGGTGTACCTTTTACACCATTTATAAAAGT
ACTCTAACCCACTTGCACTATATAGTACACCAAAAAGAATCTTTCGTCTA
TAACTAGATATATTCCCTCTAAATTTTTCAAAAGTTTTTTGTTTTGGTGT
GATATAATAGGATATAAGTGGGACATAGATGGAACAAATTTGTTTTGTTA
ACAAACAATAGGGTATACTTGGTATTTTTAAAAACTCTAAAATGGTGTAG
AAATTACATCAAATGAACATTTGACACCAAATTTGGTGTCAGACTATTCA
TTTGGTGTAATTCTTACACCATTTTGGAGTAGCTTTTATTCCAAAAATTA
CACCATTTTAGAGTTTTGGGGTTGGGTTGGAGATGTTCTCAGGACCCATT
ACATGCGTCAATTTTTTTTTTTTTCCAATCTCTAGGCTTGTTAAGGCTCC
TCTTATATTCACCTTTAAATTTTAACTGAAGTAGATAAAATGAAAAATAA
ATTGCTTAGGTGATTGTAAAGATTATTGAATTTTATTGCATCTTAATTAA
AAAGTTCAAATTACCACCCTACCACTACCAATCTACACAAGAAACAGACA
CCATTATGAAATATGTGATGATCAAAAAATGAAACAAAATTATAGGTAAT
AAATAGCTGTTGTGATGATCAAATGTGAAAAAACAAGAAATACCACTGGT
AGAAGAACATATCTACTTTTTTTCTGCCCTTCAAGAGTTAAAACGATGTT
TTATTCAGTTTGTAATTAAGAAGTGTCAAGTAGAACTTCCTTCTGAAAGT
AAGTTTTGTTGAAATATGCAAGCTACCCTTAAGAACCTGATTGAATAACA
ATGTGGTGGGGAACGGAAGTGATCATAAAGGAGTACTTATCTACATCTTA
CTAATTAATGTAATATATGTGTTGTTGAAGAGAACATTGTGTGTGTGTGT
CTATATATATATATATATATATATATATATATATATATGTTTTAATATGT
GAAAATGGGATCTATTTATTAAGTAGCTTATCTATATATCCCATAATATT
TTGAGCCTTAGTTCATAAATGCCAGGTAATATTGAAAGTATTTTTACTAA
AACTTAATTGCAAGGTAATCAGAAAATCGGGAATATGTGTGTGCATATAT
ATACTTTGTTCATTGCTGAGTTGGTGATTATTTATTTGTGCACACGCATC
TAGTCTGTTATAATTTTAAAATTTAAGGTAAGTGTAAACCGGAAGTTCTC
TGTGCAAGTACTCCATTTATACTACTTCTGTAAATCTCCAAGTTCTTTGG
CTTCGAATTTTATATTCCTTTGATGTTTATTTATCTACTTCATTTACAAT
ATTCTTTTTACACCCTTTACGTTGCTTTTCAGAAACAAAGTGAAAAGTTT
GCAACTGCGTCTGGTGACAACGTAGTGGGTGCTAACAACTTGGAAAGTGA
TGTTGTGGCAGTTTCCAGTGGAAATCCTTGTTTGATACCTCAATTCTCTG
CTGCACATAGTTCCTCAATTGTGCTGAATGCTGAATTTGCCTCTCATGTG
GCGTCATACAACATAGTATGTTTTGTGAATTTGGCGTGAGATACATCTGA
ATCATGAAAAGTACATTGCTAACGATTTTCATTTTTCTTGTAATTTGATT
TCATGCAGGCAGTCACTTGGTTCAATCTAAGCGAGTATTCAAAGTCGTTT
TCTATATTGGAACCGGTGTATCAGAAAATTGCACCAATAAGTGAGGTATT
ATTAATTGTAGCAGTAGTTTATATTTTGTGCTGAAAAGCTTGAGCAATGC
ACACAGCAGTGAAATTTGAATATCATTTGTTGAAGTTCGGATGTTTAATT
GCAGGGTATTGCTCTACGTATATGCCTTCTGTTGCTGGACGTTGCGTTAC
TGTCGCACCATGCCTCAAGATCTGCTGTAAGCTCTCTTTTTGTGAGGCTT
ATGATTTCTAAAGCACTTCAATTTTGACATAATGTGGTTGACATTTTGTT
TTCTTTACATAATGTGGTTAACATTTAGTTTCTGTGCATAATGTGGTTTA
GTTTTCTTTACCTGGTGTAAGGTTTTATGAGTTATGAGTGTCAAATTCCT
TAGGTTCATGGCTTGTCAAAGGGTTGGATTTGGATCGGATTTAGATAAAT
CCATATCCGAATTCATTTAATTTTAATGGATGGGGTCGGATCGGATCAAG
ATTCGGATATATTTTGGGCAAATCCATATGGAATCCATTTGGCCATCTGG
AAAAGAGTTCCACATTGGTGGTTTTAGGCGGCCTTCTTAAATTGTTACTC
CCATGGGTGGCATCAGTTTCAAACATGTAATATAGTCTAGTAGTTTGCTT
TACTCTTGTTTAAATGATAGGATGGTCATTGGTCAGTCCCGTATTTTGAT
TATGTTGGAGATGTTTGTCATATGGCTTTAGCTTTACTGTTCAGAGTTCT
GTTTTGGTTTCCCATGTCTTCCATGTTCCAGGTTTTATTCTCTCTTGATA
ATTTTTTTTATTTTCCTTTTCCTTTTTTTTTAATTTTTTTTTTCTCCTTG
TTGATAAAAATTGACTGTCTTATGAGCTCATAAATTTATCTATTATGTTA
GCAGACTTTAGTTGCCCGTATTATATGGAGTAGGAAGGTTTAATTCTTGA
GGTTCCGATTGTCCAAGACACCACACAACGATTCCAACAAACACACTCCC
CTGACTCAATGAGATGCTCCACACAGAAATTTTAAGTTACCTGATACGTA
GACGGCTTAGATGCTGATTTGTTTTCCTCTTCTTCCCTTGTTTTGCTGCA
GGGTATTATTGAGTATATTGAAAAGATTTCTTCTGTTCGTAGTATGATCA
GTCAAAGTGAAAGTTCGAGCTCTAGTCAGCAACATCCTCCCAATCTAGTG
ACAAAAGCTTCTTCAGTTCCTAGCACACCTATTTCTGACATTTCAATTGC
TGATTCCGCTACAAATGCCTCTGAAATTTCTTTATCCAGAAGTTTATCGG
AGGAAGCAGAATATGAAAACTTGTTCTCTACTCTTGACATGAGTGGACAA
AACCTATCAAGACCTGTTCACCATTCTTTAAATGATATCTCAAGGACCCA
AATTGATGATTCTATTCCAATTATTGTTGATCTGAGACTGAAGTTGCATC
TGTACAAGGTTCGACTTCTTCTCCTTACCAGGAACCTGAAGGCAGCTAAG
CGTGAAGTTAAGTTGGCCATGAACATAGCTAGGGGTAATAATTCTATGGT
TCTCTTTTTGAAGTCTCAGCTTGAATATGCCCGTGGAAATCATCCTAAAG
CAATTAAGCTTTTGATGGCTTCAAGTAATCGAACAGAAATCGGTACTTCT
GTAATGTTCTACAACAATCTTGGGTGTATCCATTATAGACTTGGCAAGCA
TCAAACATCGGCTATATACTTTTCCAAGGCGTTAAGTACTAGTTCTGTGA
TACGGAAAGAAAAGACTCAAAACCACACCCACACCAGTTTTGCAGCGGAT
AAATCCCTCCTTGTAGCCTATAACTGTGGCATGCAGTACTTAGCTTGTGG
CAAACCAATACTTGCTGCTCGATTTTTTTACAAAGCCAGCTTAATTTTTT
ATAATCGGCCTCTATTATGGCTACGCATTGCTGAATGTTGTCTGATGGCT
CTTGAAAAGGGGCTGCTGGACTCCACTGGAGCTGCATCCACATCGTCAGA
GATTAAGGTTCATGTTGTTGGAAAGGGAAAGTGGAGAAATCTTGTTATTG
GAGAAGAGGTACCTAAAAATAGCCGGGCTGATCTCATTGGTCAAAGTGAT
TCATCGCTTGTTAATGATAGGCAGCCTAAACTTTCCATGACCCTGGCACG
TCAGTGTCTATTGAATGCATTACAGCTGCTAAACTCTTCTGAGTCAGTGC
ACATGAGTTCTGGTTTGCCATCAGATTTAGCCATTGAGGATGAAACATAT
TCTAAAAGTACCAACTATAAGAGTGTTTCAGGTGGTGATACTCAGGCACA
TAACCTGGCAGTTGCTTCAGGTCAGGTTGCAAATGGGGAACTGAAAGAAC
AGAAGAGCACAAGTACTCCAAATTCCACCTTGAGAGACTCTATCTCTGAT
TATGAAGATATATGTAGAAAAGAGATCCAGATAATTAGACAATCTATTCT
TGTTGATTTGGCATATGTAGAGTTGGAGCTAGGCAATCCCTTGAAAGCCT
TGTCAACTGCAAGGTCTCTCCTGAATGTTGCAGAATGCTCCAGAGTGTAT
ATATTCTTGGGTAATCTTTATGCAGCTGAGGCTCTGTGCCTACTCAATCG
TTTGAAGGAAGCAGCAGAACATTTGCTGATCTATCTTTCTAGTGGACACA
ATATTGAACTTCCATTTACCCAAGAAGATTGTGGACTGTGGCAAGTAGAA
AAAATTGGTGATTGTGAGGAGTTCAATGGCGGTTCAGTGGCTACCAACAT
CGCTTCTGATGAAGGACAAGTTTTTGCACTTAATCCTGAAGAGGCACGTG
GAACTCTCTACTCAAACCTAGCTACAATGTCTGCAGTACAGGGTGATCGT
GAGCAGGCTGATAAATTTGTGAGGCAAGCATTATCTATCTTGCCGAACAG
CCCCGAAGCCAATTTAACTGCAGTTTACTTGGATCTCATGCTGGGGAAGT
CCCGAGAAGCTATCTCGAGGTTGAAAAATTGTAGCCATATTACTTTCCTT
CCTGGTAGTTTTGCAGTAACTGGACCGTCATGATCTTTTACAGCAGTGAA
TGACTTGATTCTCGCAATCCACATTCAACCCCTCACCCTGAGTTTAGTAG
GTAGGTCAAAGTTCCTTTAAAAGAGGATCTGTAACATATATATAGCTCAG
TTAAGGGAGTAATTTTTCAGTTTTCCTTTTCTTAGTTCTTAATTTTCATT
TTTGTGGAGCATTGTGTTTGGTGGCGAGCTGGTGGCTTTGGTTGTTGCTA
ATGCCCACTGGTGCCATTGAGGATGTAGTTTTGATTTAGCAGAGCTGAAA
GTGTTCTAGTGGCTGATGTTGTAGTTGACTATCGTAAGAATATAGAGATC
ATACATTGTTTAGAAATGAAAGGAATTTTCATCATCCACA