| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017374393.1, is a part of gene, LOC108204783. |
| The genetic_marker, MK003342 K0786, is located in gene, LOC108204783. |
| 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_017374393.1 | XM_017374393.1 | mRNA | DCARv2_Chr1:15908753..15917777 |
TTAGCAGAATTCGAATATTTTACTAGCCGAGTTGCAGCTCACGAAATGTT
CTGTTCATTTACAGCCCTGCGAATGACAAACGAAACCCAAATCTGAACCA
ATTTCATCGTTGAATTAAGTTAACACTCGTAGCATATTTGCACACAAGCT
ACAAGAGATGACGACGGTGTTAGCGCCGGGACTATCAAGGAAGCTGAAGA
AAGTGCTGGAAACTCGCACTGACACGCCGGATCTACTTGCGTCTCTCAAC
ACTCTCTCCTCCTTTTACACCGACAATTCTCCCGTCGCTCGCCGAAATCT
CCGATCTACTATCGAAAATCGTGCTCTCGATATCAATCGTGACTTCCTCC
TCGCCTCCTCCACCGCTCAACAGGTCCGCTATCACTTTTACACACATTAT
GCTTACACACACTAGTGCGTGTTGTATTGTGCTTAAACGATAATGATTTA
AAACGAGAGTGAGAATCGGTGATTTGTTTATGTGAAATTAGTAATTTTGA
TGCTAAGAAGTGATCTTGATTGCATTTAGATGCCAATGAGTGATTGCGGT
TAAACAGAGACAAAAATGCATATGCGTATATTGGAACGATTCAGAAAGAG
AATTGTGAGATCAGTGATATTTGTAGGTGAAAGTAGTGATTTGGATTCGA
ATGAGTATTCGAGATCGCTTTGACAAATATGTACAGACAGCGAAGAAGCA
AAAATGTATATATGTTTAGGCTTGTGCGAATGAGATATTGCGATTAAAAT
TATGTATGTATATGTTTTAGTTGGAACTGCTTGAAATGAGAACTTGTGAT
TCGTATAGGTGAAGACGGTGATTTTGGATGCGAAAGAGTGATCATGATTA
TGTATCTTTATTTAACAGAGAGAAAATAATTGTATGTATATTTAGTTTGT
GCTAATGAGAAATGGTAGAATTGATGATTTGGATGAAAATGGGTGATTGC
AGTATGAATATAATTTAAAGCTTACACTCACACAATTTTCACTTTAATCA
ACATTTAGAATACTCACTTTGAGTTTGTTCTCGTTGGAGCAATTTTAGTT
TTCATTTTAGCTAAATTTGTGTGTGTTTATAAGTGATTGACTGTTTTTTG
TGTTGTTGATGGAAGGCTTTGGACCGGGTGGAGGAAGAGATTAATGCTAT
TACCGAGTGTTGTGATAAGTAAGTGTATGCTTCTTATTTGATTTTATTCA
TATGAAGACTGTAAATTGTGATGTTCATTTTTACGCTAGACAATTAGGCA
AACACTAGTGTGCGGGCGATATTTTTATAAACAGACGACAACTTACAAAT
AAACACCTAGTATGCAATTCATGATCTAGCTACATGACAAAGAGGTTGAT
TGACACATAAAATCAAATCATTATGATTGTTAGAAGATGTAGCCAGTCGT
GGTCAGTCTTTTTGCCAGAATTTTTCTTTGTACTCTTGTTGGTGCTATTA
TTCGCTTCTTTCAATCGATTTCACTTGATAGAACTTTTCTCCTGCTTAAA
AATTGGAAATACTATGAATAATGGCTCTTTTGCAGTTGAATAATCCTATT
TATATAATTTTTATCTTTTAATAAATCATATCTTTGTATTAGGTCCAAAT
ATAGTTATATGCTAGAATCTTTCGGATGATGGTTGAATAATGGTTTGTGT
TCTACTTCTGTTATCCTGTAAGAAAACTACGAAATGGTAGAAGTTCTTTG
CCCGTGGACAATGTTATCTTCTCTAAATTGTGTTATAATTATTGCATATG
TATGTTTGATTGTTATTATTTATTTTCCTCTGAATTGTGTTATTAAAATT
GTTGCTATTTATTATTTTAGTGCACTTCACATCCCACTTAAGAGTCTAGG
AATTCCCTTGTGCTATGTAGTATGTAGTGCTTTTCACTCCTTAATAACCT
TTTCTTTAAAGAACTGCGTTTGACTTGATTATTATATTTTTGGATATCTA
CTGATATCAAATATTGAGATGAGAAGCTGTACCTTTCAGTATTTCAAAGG
CTTTAAGCAGTTGTAATGCGACAACTGGAGATATTATTAGCACCACTGAA
AGGCTCAAACATGACCTTGAAATCACTACGCAGAGGCAAGAGATCGTGGA
AAGCTTTCTACGTGATTATCAGCTTTCCAGCGAGGAGGTGATAGCTTAAT
CATTAAGATTGTTTAAACTTGGTAATTGCCTTTATAGAAAGCTTAAGCTT
TACCCATTATATCAATTTCTTATGGCATTTCTTATAGATAAATGCACTAA
GGGAAGAAGAGTTAACCGAGAATTTTTTTAAGGCGCTTTCTCATGTCCAA
GAGATCCATGCGAACTGCAAAGTACTGCTCAGAACACATCACCAGGTGAC
ACCACTCACTCACTGGCTCCTTCTCTACATACGATATTTAATATATATTT
ATGTGTTATAATTGTGCATCTGTTTCAAGTGCTGCATACCATACTTGCAT
CCTGTTCTTGCGGTCCACTCCAAATTGGCTTTCATTCTCTGTTAAATGAT
GCAAAGATTTTGTCATATGTAAGCCCATGAATGCTTATATTATAGAGACA
ACTACATATGGTTTAAAGATGTCATAAGTTATTCATGTAAACGTGTACTT
AATTGTAACAAAAATATAAAGCATGAAAAATAGTTGATGTAGAATGACGG
TGCCACAGTTATACGAGATTCTCTCATTAATTTTGCTGACTATGTATAGA
TTACTTGAATATTTGAATTGCAATCTCGCACCTTTATACTCTATACATAT
TAGCGTATCCAGATGCTTTATTATAAAAAAATTACCTGTATTTGCAAAAA
TGTAGCAAGTATCCTATTATAAAGGCTATTTGGTTGGTGAAGTGGTAAAA
TTTAGAATGTTATATCTGATTTTAGTTTTATAATTTATAAATTAACTCCT
TTACTTTTGTAAATTGTAAACTGATAACAAATTGTTCTCTCTCATTGGTA
CTCACTAGAAGAACGTTGACAGCGTGCAGGTTTGGAGCTTATGGATATGA
TGGCAGTGCACCAAGAAGGAGCCTATGAACGTCTTTGCAGGTGAAATATA
CCTAAATTAGCATATGCCTTGAACCATGAAACATATTGAACCTTTTGTTT
ACTACTCCCTCTGTCCCCCTTGGTTCTTTACATTGAGGACAGACTACAGA
GGTCTGGGCACATATTTTAAGGCTCCTATAAAGTATAGTTTCATAATCTA
TTTTAAACTTTTTTTTCTTTTGAATAAAAGTTTAATGTTTAAATTTTAAT
ACAAAAAAAGAAAATTTTATAAATAAGTTATGAAACTATACTCTATATAC
ACCTTAAAATACATGCCAAGGAGTGAAAGAAAACTGTAAAGAAATGAGAG
GGACCGAGGGTGTATATGTTTGTATAGATATGGTTTTCCGTTCTTAGGAG
CCCTACTATGTAACATAAGAATAATAAATATATTATTTCGTGAATATACT
GCAACAGTGAATGTAGTAATTAGATGAAGCATGTAGACACCTACCACTGG
CCGTCTGCAACTTGCTGGACGTTTCGGGTAAGGGGACGGCTGGGGTATTT
TCCCAAAAATCTGGAGACGGCATGCCGATGGCCTGCTAGATTTGGGGACG
CTCTGGGGACACCAGAATTACTAAACTAGCCGTCCCCACTATATACAAAG
TCTAAATCCATAATATATATTTCAGCTGCCTTTCTTTCCCCCCTCTTTCT
CAAAAAATACATCTAATATACTGATCTGGAAGTTGTTTAAAATAGAAGGC
ACATCTACTTAAAATTAATGATTTAGGGGCTGCTATATGTAAGAAGGTCT
ACTTAAATAGAAAAGAAGAAAGAAGGCCACTAAGGCTGATAGACTAAATG
GCAAAGCTTGAAGAAGAGTTGATATCTGATGTTGTTTATATTTAGGAAAT
AGGAATGCATGATATATTTTATGTCTTAATCTTTTTACCTCATGTCCTTA
ATCTAATAATTAACCGTCAACTACTGTGAGCTTCTCAGTTAATTAGTTTC
TGATTCTATAGTTCTCTATGTCGTCCACAGAGTCCCCAGACATCCGTTTC
TTGTATTAGGAGGTATTCATGAACTGTCAGATGAAAAGAGAAAGAATGGA
GGCTAGAGATAGATGCTTGAAGGATAAGTGGTAAAAAGTAGGGGGATTTA
CATAAAATACCAGATAAACAGCGAAGACTACAGAATTACAGATTAGTGAT
AGATGTTAGAAGAAGCGGCGAAGAATGGATAGGCTAAATTGCTTTAGTGT
AAACTATCTTGCCAACATGGCTATATCTGAACATGTCACAAATGTGGAGA
CTGGAGAGGAGCACACTTCACTCTTGAGCTCACTTAAGTCGGGTTATATA
CGAAAATACCAGATAAACAGGGAAGAATATAGATTAGTGATAGATGTTAG
AAGAAGCAGTGGAATGAAAACGGACAGGCTAAATTGCTTTAGTGTAAATT
ATCTTTGCCAATATGGCTATATCTGACCATGTCACAAATGGCTATATCTG
AACATGTCATAAATGCGGAGATTGGAGAGGAGCACAATTCACTATTGAGC
TCACTTCTAGAATAAATATTCACTGATTCTGTATGCTTACATGTTTATTC
TCCTGGTTTACTGTGTTCCCAATGAGCAAATAGATAACTGTATTGCAAGT
TCTATGTATAGTATACAAGGGTATGCTTTTTTTAAAGTAGTTGATTAAAA
AATCATAGCCATGAACTAGTGGACATATAGGGCTTAATACAAGTTTGATC
TAGTTAGTTCAGTGTAGGATGTAAAGACTCAAGAATTTTTTTCACATTGT
CACATTAAATCTAACACTTTACTAGCACACAATACACTTCCAGCTAAAGT
AGATGGGAAAGGGTTTAGTTTGTCTTAATTGCAAAAACACTTTAAGACAA
ACCCCAAACATATTAGGTTATGACATGTAAGTATATGAATTAAACCAGAA
TATATGTCATAGATTACAAACTAAGCTTAACATTTTACATTTTATTCTTT
CTCGATATGCTTAGTGAAGAAACATGACAAAGTTAAGGAAATGTTATATT
CCTGTTCCGCAGACCCACAATGCTAATCCCTCTATACTCAAAGGTTGAAT
TTTTCACCGGCAGTCTATTCACATATACTGTGAGATCCCAATATACTCAA
CTATTTTCGTCTATTCTCGGCTGCTGCAACCTATCTTTTTGTACTTCCCT
TTGGACATACCAGTATTGCTTAGTATTCGTTCTTCTGCAGTCACATAATT
TCGACTTCATTACTGTTAACTTTATCCAGGTGGGTTCAGAATGAATGTCG
GAGATTGGGTGACACTGACAATCCTGAAGTTGGCGACCTTTTGAAAAATG
CTGTCCGTTGCCTCAAAGAGAGGCCTGTGCTTTTCAAATATTGTGCGGAA
GAGGTATCTATTGTACTTTAATTCTAACCTCAAGTAGCTACAGTTGTTGA
TTTATCTTTTAACTTTTTATGCGTGCTTATATATAGGTAGCAAATATGAG
ACACAATGCATTGTTCAGAAGATTTATAAGTGCCCTTACACGTGGAGGAC
CTGGCGGAATGCCCAGGCCAATCGAAGTGCATGCTCATGATCCCTTAAGA
TATGTAGGCGACATGCTTGGTTGGCTTCATCAGGTTTGATGAACATTAGT
TTGGGTTCTTTTGTCTTGTACTTCTAATATATGGCTGTAATATTGCTATC
AAATTATCTAAGTATATTATTGTAAGTTATTATTTCCTTTGTATTTGATG
CAGGCCTTGGCATCAGAAAGAGAATTAGTCTTTGTATTGCTGGATCCTGA
TGCAGTAGTTGATACTGGACCAACTGCAAGGCGATTTTCTACCAAGTCAG
ACTCTGAGTCAGGAAAGACAGAACTTGATTTGACATTCGTACTAGACAGG
ATATTTGAAGGAGTTTGTCGGCCTTTTAAAGTGAGAGTTGAACAAGTTCT
TCAGTCTCAGCCAAATCTTATAATTTCGTATAAACTCAGTAATACACTGG
AGTTCTACAGCTATACTGTGAGTATTTATAGTTATAAGCTTCGAATTTGT
CAATAATACCTCCTCAGAGATTCTCTTCACCTTAAGCTGTAACTAATTGT
CATTGTGACAGATATCTGACCTACTAGGTAGAGAGACAGCTCTGTGTGAT
ACTGTATGGGCACTCAAGGATGCTGCACAAAAAACATATTTTGACATACT
AAAAACTCGAGGAGAGAAACTTATCAGATACCCTCCCCTAGTTTCTGTTG
ATCTTTCTCCACCACCTGCAGTTAGGGAAGGTGTATCTATTTTGCTTGAA
ATAATTGAAATACATGACAGCATGATGGTTCCTGCATCAGCAACGAAACC
TGACTTCGATCCAGTAATATCTGCTTTGCTGGATCCTATTATTAAGGTCT
GTCTGATGTGATACATAATAAGTTATATAATTACACTTGATTAGTTGATT
TTACCAATATGAAGTGTTTGATGTATAAAATGGAAGTAAAAATATTGTGT
TTTATATGCCCTCATCGAGAGTACTTAAATATGTGAGTCCTTGTGTGCAA
CAGTTGGTTAAGAGTTTATACCATTCTTACGTTTCTTCTAATAAATTTGT
GCTAGACTAGCAGAATACCTTACTCTGAACTTTACTAGCACAGACAAAGG
TAATAAATGGCACAGCCACATACTTTCAATTGTTATTCTCACAGCGGGTC
TAACAAACTTGATTCCTTTTTATATGGTTAACTTCTTTGGATCTGGATTT
GTATAAAGATCAACTTGGAGTTTTCGTAGGAAAATAAACACATGAAAATG
TTATTCAATTATAAAACTCCCTAGACCTCCATACTAAATAAGATATAAAG
AATAGATAAGATAATTCAATAGTAGATAATCCTTCTATAAAGCCTAGAAG
ATAGAATTATTGACTTGGTTTTAGGATTTGGATCTGCTAAGTATGCTGCA
ACTCTATGGTACTATGGCTCTATGATATTATCCTTTTTAACCTTGTGCCG
ACAGGTATTTTAACAAAACTCAAATTCATATACTATGTGTGAAGTTGCAT
TTTTTATTAGAATATTTTTGCTGGAAAGTGGAAACCATATTGCCATGATA
AGATAATGAGATCTCCATATGTGATATAGTCACTATAAACTATTTTAATT
TATCTAGATGTGTGAGCAAGCGGCCGAGGCACACAAATCCAAGGGTTCCA
TTCAGTCATCAAGACGAAGTAAAACAAGTGCTGATCAGGGTCAATTCAGT
AAATCTTCTGTTGATGCAATGTTGGTACATAGTAGATCTGCCCATTCATA
CCAGGTATGTTTCTGTTTGCTTTATGTTCCCCTTTCATGTTATAGAACTT
GCTGAATTTTAAAATAGATTTCATTCCATACCTTACATACCATTCATGTT
TGCATCATACTGGTGATGCTATATTACTATATTTTGTTATGCACTTTACA
TCTTGTATAGTAACATCATGAACTTTCCTGATAGTAAACTTTTATGACAG
AACTACTTTAATCATTTTTAAGTTTCTGTTTTTATGGACAAATTATCTAA
TTAATAAGTGCTTTAGTGGAACTTCATAGTTATGTTAGCCAACAGTAGCT
GCTTTTCAAGAATGACTGTAGACACTTCATTTAGGTCTATATTATTTCAA
TACGATACCAAGATTATATCTTCTGCTAATTCCTCTTTAAATTTAATAGT
TTAATTAATAATGAGTTTATTCAGTGTCATGCTTCATTATCCCCACGTTG
GAAATACTTGTTTATACTAAGCTTCTCTATTGATCTTTTAACTTGGATAT
GTGCAATACTGCAATAACAAGTCAACTTTAAACTGGCTGTTTATAGCTTT
CATACTTTTTTCATTTCATCTTATGCCCCTCGATTTATCTTCCTCTTCAA
CTTTTTGTTACTACTTAAGCACAGACATTGCATTGAAGCATACGAACTGT
TTGCCAATTTTTTTATACTGATCCATATTCGCCAAAAATAACGTCTTTGT
AACCATTTTCCTAATTTATTTTTGAGCTCTATACCAATTACCACTCCCTT
AATATTTCAGTCTAAGTATCAAATATATAAGGTTAATGATTGTATGATTG
TCTCTTATCACCTATAACTCGCATTATGTGACATTTCTCTATTTAAAAGC
AATCAGGTAACATGAATTACAGATAATAATAACAATTGGGTGAATTATAT
GCAGACCACGGAAACACCTTCCAAGATCTTCCTCATCAACTGCTTATGTG
CCATCCAACAGCCATTGTTAAGACACGATATTGCATCCAAATACGCAATG
AAGCTTGGAGGGATGATAGATAATCACCTGCGTGATCTTGTAGGAAAAGA
AGTTGATGCCATTTTAAGTAGATGTGGTTTGTCAGAGAAGATGCTTCGCA
TTCGTAATTCTTTAAAATCCGAGTCATTGCCATTGGCCGAGACAGAGGAG
ACATCGCCTGCCTATGTTTCAGAGTCCTTGAAAGCTTTCTTTGGGCTCGT
TTTGGGAAGCGAAACTTCGTTACCAGAATTTGAACAAATGCAAGTTCCAA
AGCTGAGATCAGAAGCTTGTGTCCAGTTGGCCAAATTGCTGGCTGAAGCT
TACGAGCTTGTTTACGAGGCAATCATGGATCCCAAGAATCGATACCCAGA
ACCCAAGTCACTGGCGAGGCATCCTCCTGACCAGATAAGGACCATTTTAG
GAATATGAATGTGCTGAACAAAATGTATTATTTTTCAAGGACGGTTGTAG
AAGCAGGATACTAATTGTGTGTATTTGGTCCGTCAAGACGCAGAATGGTA
CAGTAAACTATAGAAGCCTGAAATTATGTCATCTGAATTTTTATTCAAGG
ATAAAACACCAAAAAGATCACATTGAAGAAGAATGTTTCGGATGGTCAGG
TTGCTTTACTGTGTATAATGGAGGGCACCTTTTTAATATTTGTGGAACAT
GTTTCATCTTTGGTTTTGAGTTGACGTTGGTTGTGCCTTTTATCTTTAGA
AAAGTGAGCCAGTTGTTTGGTGTA