| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017402873.1, is a part of gene, LOC108227628. |
| The genetic_marker, MK004740 K2184, is located in gene, LOC108227628. |
| 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_017402873.1 | XM_017402873.1 | mRNA | DCARv2_Chr6:26286527..26295361 |
ATGATAACCGAAGTACAAATCTACACACACATGACTACTAGTCCTCTTGC
TTGCACTTGCACCTCCCTTTGTGTCTATCTTATATATACCGCGTGCTAAA
CGCCCCCTTTACTATTCCTCTCTCTCTCTCAACAAAGACGCTTTCAATCT
CTCTCTATCTCTCTCTGTATCTTTATCTCTATCTCTCTCTCCCCCTATCT
CTCCCTCCCTCATCCCAATCCAATCATACATACACACAACACATACTCAT
ATACATACACCCTTTCGATTCAACTTGGCGGATTCATCGATGATGAGGGG
CTAAGGTTAGGAGGCAACTAGGGTTCTTTGGAATTGAATGAGTAAAGTGG
GTCCAGGTGTTGCTGGTGTGTGTTTGTATACTAATTCTGTATCTATAGTT
AGTTTTGAAGAGAGTAGAGAGAAGTTTACAAGGAATAGTGGGCTTGTTAT
TCGAAGTCGCTGTCGATGGGGGAAATGCGGATGATTTGCTAGATACTTTG
CTCAACTTGTTGGATTTTTAGTTTTTTATTCTAGTAACTTTATTTATCGA
TACATAATTTGAGTTCCGGCGTTGTGAATTATGCTGCAGAATCAGCGCAA
GAAGGTATAATTCATGATCTTTTATCCTTTTGTTTTTGTTGTTGTGCTTA
GATATTGATTGATTTTGCTTCTTGATATGAATAGATTGAATCTTGATTGA
ATTTAGAATCTCTTTGTGTTAAGCTACTTTGATTAGAGAAATGGAATCTT
TCTTGGTTTGGTTGAGTTTTAGTTGCTCTATGTGTTTACTTTATATGGAA
GGAGATATTTTAAGCTACTTTGTTTCGAATCTTTTTTGGTTTGGTTAAGT
CTTAGTTGCTCTATGTGTTCCATTTTTGTGTAAGGAGAAAATTTTAAGCT
GCTTTGGTTTGAAAATGGAATCTTGTTTGGATTGGTTTAGTCTTGGGTGC
TTTTTCTGTTTAGTTTTTGTGGAAGTAGATATGTTTCAGCTGCTTTGTAT
CGAAGAAAAGAATCTTGATTGGACTGGATTCATGCTTAGGTTTTAGTTCC
TATTTTCAGGATGTGACTCTTTTGAACAAAATATATCTTTTTGTTGATTT
TGATGATTTGTTTCTTCTTTTTTTCCGATTAGACTGATAACTTTTGAGTT
CCCACCTCACAGTTGTGCATTTGTTGAATAACTTGTTACGTTTAGGTTTA
ACAAGGACAAGGATTAACAGGAGGTTAAAATTAAATTTAAGAATATAAAA
ACTTCAGATTACCATGTATGAAAAACTTTATCTTCTTTTGCTCAGTTTGG
GCGCTCCTAGGTCTTCATTTATTACTGTTTTGGAAATTATAGTTACCACG
ATAAAGATTATTAGAAAAGTTGTCCTCGGGCAGCAATGAATTTATAAATG
CACCACTATTGGTGTTTGGTTGGGGTGAATGAAATTGGGAGGTAATAGAT
TGAAATTTACACTATTTTATGGGTAATGTTTATAATATTTGTTCCTTCTT
CCATTCCATTCCTATCAATGTAAATTGGAGCTCAAACCACCAATTGTAGA
AGCAGATGCAGACAAACTTTTTACTCCTAGCCAGCTGCCAGTATTAACGT
TCTTACTTAAAAAATAGCTAGGATTGAAAAAATAGCTGTCCCAATTAAGA
AATAGCTAAATAAAACCAAGTCATATGTACTGTTTCCTGTATACGCCTGT
GCTTAATTATAAGGAGTGTATTTATTCTTTTTAGCTGTGATTCAATCTCA
ACTTCATACTCTTCTTTTTTACTTTCGATATTGTATGATTCCTCATATAT
CATCCTTTACTAGTTCTTCATGTATATGGAAGTTCTTTCGAAAAGTTTCC
TTATGTAATATCTCGTCATGCACTTATTTTTTTAATTTGACATCACAAGT
TACCGCAACGTGTAGTTATGTGTATATGTCACCTTACCCGGTTTCATTTT
TATTTCGTTTTTGCTAAATGAACTAGGATCAGTTTTAGGCTACATGATGT
GGTTTAATCATTTATTTCTAAAACTGTTGATATTGTATAATCACAAAGAT
AGTATATTCACATCGCTATTTGTAACAGATGCGAGAATCTTGAGTTGTGT
TGGTGTCTAGCTGATCAATTCTAAGATTTTGCAGTAGGTCTCTGGTAGCA
GTCTTTCAATCAACTATTTGACTTGTGTGATTTATAATCAAACAGTCAGT
TTTGTTATACGTTATCATGTTTTAGAAGTAAAGAAGAAATTCTGCCTGCT
ATATGCTGTTCTAATTATGCATGCATGCCCTTCTTCTGTAAGCCTGGGTT
TCTAAACATGCTTATAGTTTTGAATATACAGAGAAAAATTTTATGTTGCC
ATTACTTACTTTTATACCATGCCTTCTGTAGAATACAAAAGAGTTGGACT
TCTTCACTGAATACGGGGAGGCCAACCGGTACAAAATTTTGGAAATTATA
GGGAAGGGAAGCTATGGGGTTGTCTGCGCCGCCATTGATACACATACTGG
TGAAAAAGTGGCCATAAAAAAAATTAATAACATATTTGAACATGTTTCTG
ATGCTATTCGGATTTTGCGGGAGATTAAATTGCTAAGGCTATTACGACAT
CCTGATATTGTTGAAATTAGACGGATCATGGTCCCACCCTCAAGTCGAGA
CTTTAAGGACATATATGTCGTTTTTGAGCTCATGGAATCTGACCTTCATC
AAGTTATTAAAGCCAATGATGATTTGACTCGTGAGCACCATCGGTTTTTC
CTGTATCAGATGCTACGTGCATTGAAATTTATGCATACAGGTACTGGTCC
AGATAATAGTTGATATTAAATGGTTTGTTTCCTAGGCTGAAGCATAGTTT
GATTCTTTGAAATCCTGTTTTTCTTGAATTAGTAATTGTTAAGATGTTTC
ATATTATTAGAAATGTTATTCTGAGGCTGTAAGCTATTATTTTTCAGCTA
ATGTGTACCATCGAGACCTAAAACCAAAAAATATTTTGGCCAATGCTAAT
TGTAAGCTCAAAATATGCGATTTTGGACTAGCAAGAGTTGCTTTCAATGA
CACTCCAACAACTGTATTCTGGACGGTATGCAATTCTTTTGTATCTTAAT
TGTAATCTTTTAGAAGCTTGGTGCTCACTGCTGCATCATATATTGTTTAC
TCGCATCATGATGCAGGATTACATTGCTACAAGATGGTATAGGGCTCCAG
AGCTTTGCGGATCATTCCTCTCTAAGGTTCGTAGTCTTTGTTATTAACCT
AACAACATGCTTGGAGCATGATTTGAATGATTTGTAATGGTATCTTATTT
GGTGACAATGCAATTTCCTTTTACAACTGTGATTTAAGTGCCCTGGGATT
TTGAACTTTCGGTAAAGCAGTTTCAGAATCTATTTGATTGCAAGTTAATT
GTATTAACTAGTGGCCGGTAAAAGATGAACAAAAACATCGAGTTATAAGT
AAATTGTACTACTAATCAGTTTTTGTAAATTTTATTCACAGAAAACTGAT
TTTATCAAAATGGGTTCCTATTTTAACTAAAATCTATTTTATATGTAACA
TAAATGTTAAAGTTTTTATTAGTGTAAAGTGCTCTTTGTGTACCTGTACT
TTGGTCGTGTCACCACTTTCAATATTAGAGTTTAAAAACAATTAATTGAA
ATACCAAATTTTGAAAGTCGTCATAGAATGTGCAATTCCGTCTGTCCCAG
TTAACTCCGTTAGATCTTTTGGGGGTATTTGCATATTCCTTCCAATAACG
ACTTTCTGGCCTATTTAATAGAGTAAACAGTCCCAAAATATTACGCGGTC
TTCTAGTAAACCCTAAATCATTATTTAGTGTGAGTGTTAACAACAGAATA
ATTAGGTATATGAGAGGATTGCGTAACATTTAGGGGCTGTCTGCTCTATT
AAACAGGCTAGAGAGTCGTTAGACGAACCCCAAAAAATCTAACGGAGTTG
ACTGGGTTAGATTGAATTGCACATTTTGTAACGAATTTTAAAGTTTGGTA
TTTCAATTGTTTTTTTTTTCTTTTTAAAATTGAAAGTGGTGTCACAACCA
AAGTAGCGGTACACAAAGTGCCCTTTATTCTTTTTATTAATATAGACAAC
TTCTCTCAGGGACATACTTTCCAAGAAAGATTGTTATGGCAGTACATGTT
TGCAAACGTGGCTGATGAGATATGTATGTGTTTTCGAGTATATAGACCAG
AATATATTTAAAAGTAAAGCGTTGCTGAATTGTGATATCACTTGTATTGA
TCTATTTGTGACCATATGAATTTCCCTTTCATGTAATTTCACTTAAATGC
ACTATTTTAGCTATGACGCTTTTTAGAAATACTCCATTGAGATCAAACCT
AAGATTAACATTGAGCCTCTTAACATGTGGATTACATTGAACCTCTTCAT
AGTTTATTATGTTGTCACGACCATTTGAAATTCCCGTACCTGTAGTTTCA
CTTAGATGCACAATTTTTGCTATGATGCCTTTTAGGAATACTTCTTTGAG
ATAAATTTTAGATCAATTAAGGAAATACATTTTCGTATGTGAATAAATTC
AGTTACTGAAAATTAGTACAAGTATATAAGTTATTGTTGTAATGAAGCTT
CTACATTTAAAAGCATAAGACCTCGTGATACTAGAACAAGGACACTTTGG
ATTAAAGATCATTTGCTATCACCCTATTTTTACTCTTAGTGTTTTCCCTG
TTTTTGAATAATTAATTCATCATTGGTGACTAGGTTAGTGCTTAATAATA
ATTATTATTAACCTCAGCTGTTGGTCTACATGAACAATGAATCAGTCCTA
ATGGTATTCAGAAACCTTCTAGTAGCATATTAGCTGGTTTTTCCATGCTA
AGTATATGTTCAGTCTGAAACAAATGATTGTTATCAATATTATAAAAAAA
TAATAAAGTAGCCCCTGATTTTTAGTTCTTTATTGAACTTGCTGGACCTT
GTAGTAGTTAATTTGGAGGGTTAGTTGCTATCTTAAAATTGCCTGATACA
TGATATCATGTTTGCAGTATACCCCTGCTATTGACATATGGAGTATTGGC
TGCATCTTTGCGGAGATATTGACAGGAAAGCCATTGTTTCCCGGGAAAAG
TGTCGTTCATCAACTGGATCTGATCACCGATCTTCTTGGGTCACCTTCAA
CGGATACCATTTCTGGAGTAAGTAACACTTCTGTATGATTACTTCTAGTT
ATGGCTTAAATCCTTGATACCTACCATCTCAATTCACATGTCCAATTAAT
GCAGGTTCGAAATGAGAAAGCAAGAAAGTACTTGATAGATATGCGTAAAA
AGCAGCCTGTCGTATTTGCTGAGAAATTTGCAAACTCGGACCCTCTTGCA
ATACGTTTGTTGCAAAGACTGTTGGCTTTTGATCCAAAGGATCGGCCAAC
TGCTGAACAGGTGGCCTTTGTATTTTTCTTGAAGAGTTCTCTTATTGCTT
GTATATCATTTAGCAGTGACTGCATTTAATGATCGTTAGACAATTTGTTA
CTTTAGGAGAAATCAGAGTTTTTTAATTGTAATTATTGGTATTTTTTAAA
ATCTAATCTTTATCATAATTCAGTATTTTGTATTTTGGTTCCTTAGGCAC
TGGCTGATCCATATTTTAATGGCCTGGCAAAAGTTGAGCGGGAGCCTTCT
TCTCAGCCTATTTCCAATGATGAGTTTGCATTTGAAAGTCGCAAAATGAA
AAAGGAGGACATCAGAGCAATCATATATCGTGAGATTTTAGAGTACCATC
CCCAATTGCTTAAAGATTACATGGCACAGAAAGAAAGCACCAATGTTTTA
TATCCTAGGTCTGAACTTCTATACATGAGCATATGTCTGCATGTGATAGC
CTACATGGCTACATGTGATAGCCTATTCATTTCATTCTGTGTGAAAGCTT
TTGTTACAAATATCATGTACTGATCTTATCCAATATCAAATGATTGTATC
AGTGCTGTTGGTCAATTTAAGAAGCAGTTTGCTTATCTAGCTGACAACGG
TGGAAAGAGTGGGCCTGTTACAGATAGAAAACATGCATCTGTCCCGCGGT
ATGGCTTTGGTTCCATTTCACATTTTATTTTGATGTTTTCTAGGCTTCTA
TTTCTTTCTCTGCACACTTTCTTCTACGATGTGAGGCTCAACACAAGACA
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACAACG
GTTGAAAGAGTGGGCCTGTTACAGATAGAAAACATGCATCTGTCCCGCGG
TATGGCTTTGGTTCCATTTCACATTTTATTTTGATGTTTTCTAGGCTTCT
ATTTCTTTCTCTGCACACTTTCTTCTACGATGTGAGGCTCAACACAAGAC
ATTGTGATCAATACCTACATGATATAAGAAATTTCATTTTGTTTTTCTGA
CATCACAATTATAGACAAGGTTTTTTTCTTGCTGAACTGGAAAAATTATT
ATCTTAAATGAGAAATATTACATATTGAGAACCTTTGGCTACATTACGCA
TAAAACAGCTAAATATGTAACTTCTAGTGATTTGACATGTCGAATAATGT
GGCAACTCCATGTTTTATCTGATAAAAAGCAACTCCATATTTTATCTTAT
ACTGGGATAAGGATCATGAAGAATCTTCTTCTCTGCCGCTTAGGGTGTCA
CCTTGTGATGTGATTGTTATCATCAGGACTTGTTGATACATAATATAATG
TACAGATCTTTATGAAATTCTTCATTTGTGCACCACACCACCTTTAATGC
ATGCCTGCCCATTTGTAGACTACTATCACCCTAATATAATTTTTGAGGAT
CTTTGGTGATTATCTTTAAAGGATGAAATTTCTTTGTAGCAGTAATATCA
CTGTTATGATTATTATCTATGAGAACCATTTATGTAGTGCGAGTGAGGCG
ACTTGCTGTGTTCGCGAAACATCAAAAAAAGAAGAACAGAAAATGGGTTA
TTTTCTTTTCTCTATAAATCTTTTCAAAAGCGGGATGAAATTTTTTGAGA
CAAATAATTAAAGAATTTCCTCAATTTTTAGGTTTTCTTTCCTTTCTTTC
TGGAATTTCTTATTCAGTAATATATTAAAAAATAATCAAATCTTCCACTT
TCTTTTCTTCTCTTTTAAACAGAAGTTTTAGTATGAAAGCTGTTACACCT
CATAGGTGCTCTCTCTCCCTCTCTAGATGGCTTATCTAACCTGTTTTCAC
TTGTCTCCATCTTCTTGGTTTTATTCTTTAGTCATCCATTGTTTCAGCTT
GGTAGTACATGTGTTGACTTGATTATGTTCTGTGTATCTTCTTCCAACTT
ATCTTCTACACACAGGTCTGCAGTCAACTCGCGTTCAATACCTCCTAAAC
CACAGCAAACTTTGGTTCCTTCCGACAATCGTCGAATAGCAGAGGTATCA
TGTAACAGTACTAAAGGTACAAATTCTATTCCGGGGAATCTGCCCAAAGC
TTCACGGCCACCACCACGTATTCCAACAGGTATGGAAACACTTGTACTAT
ATTTCTTTAACACTGGTATAGGAGTGAGAAAAAGAATCATCCCTGCAGCT
GGGTCCCTCAATACATAACACCGGCATAATCTTATAAAGATGTCATATAA
GTTTCGAAAAAATCCTGTCATACTTTCTTCATCCCAAGTTTCTGTTTCTC
ACATGTCGAGAGATGATTTTATTGGGTATAAATTTGACATCATTGAGATG
ATCATTGATGGTTTGCCTGACATTTTCGTATAAACGTTGGTATGACATTC
ATTTACTTTTGGAAACATCATCATGGGTATAAGTAGGTATTAATAAGAGA
AACATGACAATGTGAAGTTACAAGTCACATGATGTATAAATAACCTCTCG
TGGAAACTCCGAGTTGGGATATTAGTTTGTCAGGCTTGTTATGAGATAAG
GAGTTTTCTATCTCTTCAAAAGGTATTAGGGCTATTACTTAATAACGCTG
TAATGTTATTATTCTGGTAAAAGCAGGAAGAGGTTCGGGACCAGTTTTGC
CTTATGAGAGTAGTAGCAGAAATGTCATGGGCACTTATGTGCATAATTCA
GTGCCTCAGTCACTTTCTCCAAATTATACCTTCAGGACTAACACAAGAGA
TGTAGAGAAACTTACCAAAGAAGACAAAGTGGATTCTTCTCTGGTCAAAC
ATGCAGTCCCACAGTCCGCGGAAGGAAAAGTTTCCCCTGGCATCGCACCG
GACATGAATTCTAACCCTTATCAACAAGGTCAATCAAGCCAATTTAGTGA
CCCGATGCAAATAGATTCGAAATTGCTACAGGTGCAATCTCAGCTCGGAG
CAGTTGGAGCTGGGGCTGTAAATTTTACAACTAGGAGTTAGTGTTCCAGT
ATGTTCTTGGGTGGAATGGCCTTGAATGAGTGGAGCCAGGCACACATAAT
ACAAGATAGGATGGTGGCAGGTGGGAGCTTTGCTATCTTGTGCTAGTTTA
GTTTTTTAGAGGTGTTAAATTATGTTTATGTAAAGTTGCTGTAGTTGTTT
TGAATTTATTCGAAAAGTTAATATTTATTTTTCCAACCATAGAATTAGCC
TGACCCTTTCTTCTAATCATAGCTAATTAGGTATATCTGCACTTATAGTA
AAGATTTTTAAAAATTTCGATTTGCTTGTAAAAGAAAGATGTGTAGTACA
TTTTTGGGAGATATCAAAGATTCTTACAAGCCTA