| NCBI Gene |  |
|---|
| Relationships |
|---|
| The mRNA, XM_017371261.1, is a part of gene, LOC108202736. |
| The genetic_marker, MK003439 K0883, is located in gene, LOC108202736. |
| 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_017371261.1 | XM_017371261.1 | mRNA | DCARv2_Chr9:18183484..18191343 |
GTCCAAAATAATGGTAATTGTATGTATAATATCCCCCACCTGACCTGACC
GCCCAGCCAAAGACCACAATAACAATCTCTCTCACACACTAACACACCTT
GAAAAAACACGCACATGACAATTATCTCACCACCGCCATGCCGTCATCAG
CTATACCTTCATCCTGGTCTTCTCACAACCGGCCGGAATTGCTAATTGCT
CGCCTGAGATCCGCCGGAGAAGGCAGACTCAAAGCTTTAAGAGAATTGAA
GAACCAAATAATCGGCAATCGCACCAAAAAGCTGACGTATATCAAGCTCG
GCGCTGTTCCTTCCGTCGTCGAGATTCTAACCTCCGCCGTTTTCGACACC
TCCGGCGATGTTCATTCAATTTTAATTCAGTCGTGTGCTGTTCTCGGAAG
CTTCGCTTGTGGTGTTGATGCTGGTGTTAAGGCCGTGCTTGAGGCCGGAG
CTTTTTCGCATTTGATGATTCTTATTTCCCATCGTAATGATAAGGTTATT
TTATCATTTCATTTATTTCATTATTGTTGCTTTTCAATCAGGTTAAAGTT
ATCTGATTTTGTAATCAAATGTTAGTTAATTTATTCATTTCATTCCATTT
TCCTGTCTTGTTACTCATTGAGAATTAGGTTGAATTGTCGATTTTCATTT
TGTATTAAAATGTTAGTTAGCGGTCCATGTGTGTATTTGTTGTTTTGTTT
GGTAGAATGATGATGATGTAATGGGATATATTTGATTTGTTTTTTAGCCC
TTAGTTTGTATTGTAAGGTTGTTGCCTATTGGATTAGGCTAAAATATGAG
ATTTTGGGAATATGTGGTAAATACATTAGCTGAATTGGATTTTAGTCTTT
ATTAGCCTTTTGTTGTAAGGTAAGTGAATTAGGTTAAAGATTTCAATTTT
GTTGGTGACTATGTTGTGTTCGAACTTCGAACATTACTATTTAGGAATAT
GAATGAAATAGTCTGGAGGATTAGGGCATGTTTATGTATTTTTCTTGCCC
TTTTTGGTGGAACAAGTGATGATTATAAGGTAATACATTAATCGAATTGG
ATGTTTGTCTTTATTACCTTCTGTCGTAAGGTAATTAAATAATGGTTAGA
TGTCTGGCTAGTGGTTCTAGTGTTTCGAAAACAAGGGAATCGAGACACCT
GTTTTGAAGATTTTGGCACGTGCAAGATACCACTGAAAGAACTAAAGTAA
TGAAGGATTGGTAAAAACGAGGATAAATTAATTGCGGTACATCTTTAGTA
GTTACGAACTCTAAAAAATCTTTATGATATGTTGTCCTTAATTGTAATGG
TTTTGAATTGTAAAATTCCCTAAAATATTTAAACTTTATAGATCTAACAC
CAAACAATGGGACATTTTACATGAGGTCTTTAATGCAATTTGTGATTAGC
TTGTTGATAATTTACTTTTAAGGGTTGCCTTTCGTACGCATTACTACCAA
ATATTATGGTTGCTGTATTCCCTTGTATTCACAAATTGAAGCAGTGGATT
GCTGAAATATGGAAATATTATTTGGATTTATAATTTGGGTTTAAAATTAT
GATCTTGTTGTGCACTGACATTATAGGATCCCCATTTGTGAAGTGCAAGA
TTTTGTGCACATTATATCTGTTTATGCAATTTGACGTGCTCCAGTATATA
TATGAATTTCAAGGATATGACAATTTCCACATGTTAACGATGGCAAATTT
TCATTTTTAGACTAGGGAACCACATATATCATTTTAGTTATTTTATATAT
GGAACCTCTCTATCGGATCTTTGTGATAAGCTATTAGAGGCTGGATGTCT
CGTATCTTTCACCTTACTGATGCAAAATACGGCTGTGCTTGTTCTTACTG
TCCTTTAATATTTTGCAACTACAAATTGTTGTTTTATTTATCAAAGAAAG
CTTTATTCTTCATGGCATCTTTGGGGCTACTTACTAAAAGTTGGACAGTT
AATGCTCATTTCACCTATAGCATGTCTTTTACTTTATGTGTCGTTAAGAT
GGTTTTGTTTGTGTTGCAGGTTGTTGATGCCGCTGCTCGTTCCTTACGAA
TGATATATCAATCCAAGTTGGCCCCGAAGTACGACTTTCTTTATGCAAAA
AACATTGAGTTCATTTTATCATTACTGAATAAAGGGAATGAAAATGTTAC
TGGACTTGGTGCTAGTATTATTACACATTCCTGCTGGTCAAAGATGGAGC
AGAGAGCTCTCAGTGATGCTGGAGTCCTCAAGAAGCTGGTGTCCCTTCTT
CGAGGTTCTCTAAGCCAGAGGGATGCTAGCTTAGAGTCATTAGCCTCGCT
TATCAAAGATAATCCAGAGGTCATCTCGAAGTTTGTTGGACCTGAAAGTG
GAAGAGCTTTAAGTGCTGTGACCGAGTTAACAAAAGATAGATATCCTCGG
ACGAGGTTGCTTGCTTGCATGTGTTTGATTGTAGTACAAAGCTCTTCTCC
TGCCTCTCTTCAAGTTGCAGGAATTAAAATGAAATTGATAACGATTTTGC
TTGAGCTTATGGATGACCCTGGTGAAGTTGGGGATGAAGCTGGCTTTGCT
TTGTCAAGTTTCATTTCAGAATCAGAGGATCTGCAGAAATTAGCATTTGA
GGCAAATGTTGTTGATAGACTATGTGACCACTTGCAGAATTGTTTATTAC
AGACTCGCCGTTATCAAGGTATATTGCTTGCATTGGCTGGTCTATGCTCA
AAACTGGAGTGCTGCAGATCGAAAATCTTTTCACATAAGGTTTGTTTTCT
CAGCAAAATAATTAACTTGACAACTGCCAATTTTATGCTGCCGTAGTTTC
CCTCATTTTATTTGTAAATGTCTTCTAGTTTAATATTTTGATTATTACAA
TCTTGATATCCTGGTATATTGACAATTGGAAGTTTACGTACGGAAGAGAA
CTGTATAGCTTTTAATTGATCTTATTAATATTTCTTGTGAAAATAGCTAT
GTACTGAGTTTCCTATTGTCTATTTGTCTTCTGCATTTATCATCGAGCTG
TTCTCAGTGTCAGAAATCAGTGGATAGATAGGCTACTAAAGAATATGTTA
TTAAATTCTTTTTCCGTAGTCTCTTCTGAGGCCTATGTTAGTTGTGTCTT
CTAAGCATTATTTACCAAGTCTCCGCGACTCTCCATACTTGCATGTTTAT
ATTTGTAGTTTTGAGTTAGGTGAACCAGGGATTGGATGTTTACCTCTAGA
ACTCCTGACATGTACATATTGTTCTTACTTTTTTTAGACCCTCAGCGCAA
GAGATTATAAATTTTTTCAAATGAAACCCCATATATGTGTAATGTAAAAA
TAGCTATGCAATGAATTTTCCTTTTGCCATTTCCTTTCGTCATCCAAGTA
GCAGTGGATCAATAGGCTAGTAATTACATATCAATGAACTCTTCATTCCC
AGTTTTGTTAGAGGCCTACATTAGTTGTCTCTTGTAAGCTTATATAGCAA
GTAACAAGTTTCCGTGACTATAAATTTGCATGTTCCTATGGCTAGTTTTG
GGTCATAAGACAGGGATGGGATGTCCACCTCAAGAACTCCTTACATGTAC
AAATTGTTAATTGCTCATTCTTTATTTTAGACCATTCGAGGACAAGATTA
AATGACCCTCAAACTGCAACCCCATAGTAGAGTTGGAAATTAAGAACCTA
AGCAAGTCGGTTGGAATCTCTGTAAATAGTTAAAGGGGAAGTTGTACTTT
TAATTGGTAGCACCTATTCTTCGCACAATAGTTGTATAAGTGGGATCACA
GAGAAGTTTTCCGTGCAAACTTGGCGCATAACTTCTTCTACCGATGCAGT
ATTATTATGAGGGGCAAGGGGAAATGTCCAACCCTAGCAAGGTCTGCAAA
TTGCTCAAAAAAGCCGGCAACTTGGAGTGCAAGCTTAAAAGCTCCAGTGT
TGTTAGTGAATGCAATAAATGAAACTCTGCAGATTTAATTATATCTTTTT
TTGTTGAACATAAATGCCAATTCCATAAAAGACATTCTGGAGCTCCAAGT
ATATCACTATTGCTAGATGGAGAATTTTTCTGTTTTCCTTAATAATAAAA
TGACACGTATTCTATTGCATATGCCCTCTCAAGTCCTTTCTTTGTAACGC
TGCTTCAACAATAGATATGAACGATAATCTCTTTCAAATCCCTACTGAAA
TTTTGTGGGAAATTTCTGTGCTATTGGTACACTGATACGCCAGTGATGTG
CTAAATTTCAGTTCCACGCTGGCTTTCTTTACGGCAAAAGTTTGTCAAAA
TATGTGATACTCATATAGCTTCAACAAAGTATGGGTAACCTAAACCTGCA
ACAAAGTGAAAAAACAATATAGCTTCACCCTCTATACAATATCTTAAATA
CCTGTATATGTACTGTAGTTTTTGTGTAGATCTTATATTGTTTTATTAAT
TTAAATCTGTCATTGCTATACTTCTGGATAAACAAAGTAGATCAGCCACT
GCTGTATAGAATTACTGGTTTTATCGTGGGAACAACTAGTTATAGACAGT
CCTGATATACTCATATACTGATATGTGCACTTAGTCTCAATGAATGCTTA
AAGTGTAGGCATTCAACTTGATAATTGATGCCTTAAATCATGAAAGATCC
GAAGTACGTGTGGCAGCATGCATTTGCTTAAAGAGTCTCTCTCGCTCAGT
CCAGGTATGTAAATAATGCTAAAATATTCAGTTTGTGCCTATAAAATATT
GACCTTATATAATTTTGGCTAACATCATGTTATTCCAGCATCTGAGTGCA
GGTCACTTTAAGACAGAATTAATCATTATGCCTTTGGTTAAGCTCTTGTG
CGATACTTCTACTTCTGAGCAGGTGTGACATGTTTTCCTTGGAAAATATT
TTTACATGGAGCTAGCTCTACTCACTATTGACAGTTCACAATATAGTAAT
TTGGGTTACCTAGCCTCTTTTTTCACCTTGAGTACACGTGTCTGACATTG
GTTTGTACTTTGTACTATGGATATTAGACATTTCATTTTAGACCACAAAT
ATGCAAAATTTTTGAAGAAAGCACCTGATCCGACACTCGATCTCTTATCC
ATGTTGGACACTTCCAGCAAAGTCCTGGCAACATTATGTCATAGATATTA
ATTATTAAGCTGACAACTACTGTTCGTCCTTCCTTTAGAATAAGATCTTT
ATCCAACATTTTTTTTCTTTTACATGATCTCATGTTTGCACCCACATTAG
AATTATCACGCTCGAAAATCCATCTTATGGGGGACATGGAACTATTATTT
CCTTAAGTTGTATTTAACTCTCATTTCCACCAAAAAAACAATACTGCCGT
TTATCGAAATATTTTATGTTTAATAATGTGAAAAAGTTAAAGTTATGAAG
TAGGGCTGATGTTGACAGTGCATTCCTGCAGCATTCGACTCTAAAGAATA
ATTATAGTGTAATGTTGTCTGTTTCTTCAGGTAGCAGCCCTTGGTGCTAT
TAGCAACATAGTGATAGATTTTGCTATGCACAAGTCACTTCTCGTTAAAT
GTGGCGGTGTCAAGCAGCTTGTTCAGCTATCAAAATCCATGGACTCAACT
ATCAGAGTAAATGCTGTTTGGGCTTTGAGAAACTTAATGTTTCTTGTGGA
CAATACATGCAAAGAAGGAATTTTTTCTGAGCTTACAGCAATGACATTAA
GAAGCCTTATATGTGGTAATTATCTTTACTTTTTATGTTAATTGCTAATT
TAATTTTATGATACATTATATGTGCTAATGCACAACTTTCTGTGTATCTA
GATCCCAAACCTTCTGTCCAGGAGCAAGCTCTGGGCCTTGTTCGGAATTT
AGTTGATGGATCTGTAGATTCTATCGAGTACATGTTTCTCGAGGACTGTC
TCTTACTCAATACTGTTGGAAGGCAACTGCTGAGTGCTTCTAAGACTGAA
GTTCTGATTCAGGTTGTCAAATAATTCTTGAATACACCTTGCAAACACCA
CTTGTTTATTTGTACAAAGGAGGATATTAATGGTCAAGTTGGTTTACATT
GCATATTTAGTGGAATTTGACATTAAGGTTGCACAGCTGTTGCTAATCTT
TTATTTATGGAGCTAAAACATATGAGTGTGTGATAACTACTAAAAAGCTT
ATAAAAACTGCTTAATAGAATATGAATACCATGTACAATTGATTAGTATA
TTTAGTTAGTGTACACGAGGACCCTGGAATTCAATGCCTGCTCAATAGAG
TGTAGGCATATTTAGTTGTGCTATTAATAGTTAACTAATCCAGTTTCTGG
AACCACTTCAGAATAGAAAATGACTGTCAGTGTCTGTCTGTGCTATTGAG
TACTCTCGAGAGTTGGAGTGATCTTTGGTTTCCTAGTGCAATATACGCAG
CGGAAGGAATTAGATTTAATATGTATTCATTTTATGTTAATTTAGAGATA
CAGTCAGTAGAATAACTGATAGATTTGTTTCTTTTATTTTAGTTATGGTA
GTGGATTGGTACAATTAAGTGGATAATTTTTTTTTTGCTTGATTATGGTA
GTGGATTAGCAGTAAGTAGATATTGATTATAAGTAATTTACTTGTTAGTA
GGATTTTGTTTGTTGGTTAAGTACTTAAGTTTAAGGTGCTCCTTTTAGTC
CTATACAAGGAGATGTTAGTTGATTTGAATCATGTATCTTGAAAATTTAT
TTCTGAACTTTCTATGATACCTGTATGCTTGAGATCTCCTTTCTTTGGGG
ACTGGAGAAGTTTCCCTAGTATGTGAAGTTTCTGTTACTTCCACTAGTCT
TTTACTTGATGATCCTCCTTCCCTTGTACTCTCGCTCTGTTCTCTTTACT
GAACTAAATTGTTGTATTAAAATAGTATTACTATAACAGAAATTTGGCTA
TTAGAAATTTTTGCATGTTCACATCAACATAAGATATAAGTGCTGTTACA
AATGTTGACAACCTAGAATCAGGCATGATTCCATATTTAAATTTGGTGGC
TTATATGCAATTAGGAAACTAATTACCATTATGCAGTAGGTGTAGGAGGT
TGACAAAGCCAATTCTTCTCCTTATCAGTACAGTTTTGGTGTACATTTTC
ACATTTATGAATTGAGTTTAGGTTTCAGCACTGCTATTGAATTCTGATAA
ATCAAATATTATGTGGTAACTTTCATATAGGGGATGTTTGTCCTTTGCAA
CGTGTCTTCTGGGAATGAGTTTCACAAGGAAGCAGTTATGCACCAATTAA
TGACACCAGCAGACCCTGATACCTTGTCGATTGTGGTCAAGTTCTTGCAA
AATAGTGATAGCCAATTACGCGTAGCTGCTGTCTGGGCTTTGGTAAATCT
TACCTCTCCCAGCAGTCCTGGTGCATTTGCTCGTGTTGTAAGATTAAGAA
ATGCTGGTGTTGTTCAACAATTAAAGACTATGGTCACTGATCCGTGCTTG
GATGTGAAGGTGAACATGTCAATAATTGATACGTTTTTTAATTGCCTGTT
CCATATTTTTTGTCTGATATATATGTATTTGTTCTCTCAGCTTCGTGTGA
GAACAGCACTGGGGCAGACCATGACTTTTGATGCCAGTGTGGTATGAATC
AATTTTCCTATACGCTAAAACATAATCGTCAACAAGGAGTGTAATTCAGA
ATGGCATAATTACAGCATGGTATGCCTATGCTAGAGATTTATCATGTCAC
CGTTCATGATACGAGAGCTCAGATGTATTTCTGTACTGTTGTAATAGTGA
GTGAAATCTGATTATTTTGTTAGTTTCACCACCTCCTGCACAAATTTAAT
ATTTTCGAAACGTTCCCTAGCCTCTAATGTCATTTACTGGTTTCCCTACT
CTTCTTTTGGGGGCTCGATTGGAATCAAATTAAGAACAATATATTTTGGT
TGATATCCA