| NCBI Gene |  |
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| Relationships |
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| The mRNA, XM_017373722.1, is a part of gene, LOC108204341. |
| The genetic_marker, MK004615 K2059, is located in gene, LOC108204341. |
| The mRNA, XM_017373724.1, is a part of gene, LOC108204341. |
| The mRNA, XM_017373723.1, is a part of gene, LOC108204341. |
| 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_017373723.1 | XM_017373723.1 | mRNA | DCARv2_Chr1:33516653..33523357 |
| XM_017373724.1 | XM_017373724.1 | mRNA | DCARv2_Chr1:33516653..33523047 |
| XM_017373722.1 | XM_017373722.1 | mRNA | DCARv2_Chr1:33516653..33522613 |
GACAAGATCCGTTAGTAGATCCGAAGCAGACTTTACTTAGCTTTACATCA
CACGTGCGAGTTTTTCCTTTTTTGTCCGTGAGCCTCAGCCCCTCTCCACT
TTTCCTTTTATTTTCTTCAATTTGCTTCCCTCCACTTTACTCCATTGTGT
ATACCCACCCCTCTCTCCTTTTATTCTCTCTCGAAGTATCACTCTCGATA
TTACACACGTAGGGAGAGAGAGATTTACACTTGGAGAGAGAGATTTACAC
TTAAACAAATGCAACAAAATCATTTCACATCAAGCATCATTTCTTATTGA
GGTAAGTGCAAATCCTTCTCTCTTTTGTCTTATTTCTTCAAATATGCATT
ATTCTTATTATTCTAATCACCATTTCAGTTTAATTGCCAACCCCCCACCA
AAATTTGGCTAACAAACTACCAGAAAATTAAAATGGGTGCTTCTTGTTTG
TTTCTTTTTCAAGCTCCTAGTTGCAAGATTTCAACTTTTTTATTGTTTGA
AGTTTTCTTTGCAATTTAATTGAGTTTTGCTGAAATTGCCATCCTATGAA
AAAAAATGGTGTCTTGAACTCTTGATGCATAAAGAATAGACAAGGAGCTT
GTTGAGAATATGACATCTGCAGTATGTGGGGGAAGATTTAGTGATGCTGT
TGTCAAACTTTGTGGGGATAACTTATATTATGGGCAGTAATGTGATTAGT
TAAGGTATGTTGGATATAAAACACACACACACACACACACACACACACAC
ACACACACTTACTATAGTATTCACTACTCACTAGTGATGGGTAATGTCTT
TTCAGTTGTGCATCAAGTCAAAAGAGTTCAATTAATCTCTATTCTTGGAT
GAATTCTTTGATCTTAATCTTAGACAAAATCTTGGGATTTTATTTTGAAG
AAATCAGAAGTATGAAAATTTAGTAATATGCATCTTGACTTTGGGCTGAT
TTGTAAAGTTTTTTCGCCTGGTTGAATATTATTAGCTCTAGTATTTTTAG
ACATATTAAATCAAAAGAGTTATTGCTTTGCACTATATTTTTTAGTTAAG
GAAGGGGAAATTTCTTAATCTGATTTTTTGTGGAAATTGGCACAATGAGA
TTGTTGTCACAAAAGGGAAAGAATTTCCTTGAGATCAAACTCTGATATGT
TCTCATCATATATGTTGAAATAATAGTGATTTCATGCTGGGTGATTGCTA
TCTTTTGTTCTTTTTAGTCTGAATAACTCTGAGATAGTTATAGACTTATA
GGAACTTTGTATGCATAAGTGGTTTTCCTTGAGTACTATTTCCCAGTACA
ATCGAATTGCTTTGGCTGTGTCATATTGCTCATCTAGACATGTCTATAAT
CTTACACTATCACATAAATACCTTATAATTTAGTTTTAGAAGCTTTCAAA
TTTGTCAGAGGGTGCTAAAGTTCAGGGTAGGCATTTTCACAAGATAGTAT
GTTGTTTAGACTTGTGGTGTTTATCTATCTAAATAATTAGGCATGACCTA
ATATCCATGTGGATCCTATATATTCAACCCTTAGAGCAATGTTTACAATC
TTTTAACGTATGACATCATACAATCAGGTTAACAAGTTCTTGGGGGACTC
CAGGGAATGTTGAACTCTGCCTCTTCCAGAATATTTGCTGTCATGATCTT
TTGTTTTGCTTGTTTTTACTTGAAGCAGTTTCTACTGATTTCTTAATTAA
TCACTTCTGTTAACCACTGCCCACTACCCAAATAAATGAAGTAGTAATTA
CGTTGATTAAAAATGTCAGATGCGTTTATTTAATTGGACAAAGAAGAGGA
TTATCTTCTTCATAAATTGCAAAAGTTAGGATTATACACCACTGACATGT
ATTTTATGCAGCTTCATTTGGCTGTTGCTGGGAAATGGAGTCTTGCGATT
GTTTTGAGACTCACTGGCCTCCAGATGACCTTCTAGTGAAATATCAGTAT
ATTTCAGACTTCTTTATTTCCTTTGCATATTTTTCTATCCCCTTGGAGCT
CATTTACTTCGTCCAGAAAGCAGCATTCTTTCCTTATAGATGGGTTCTAG
TGCTGTTTGGTGCATTCATTGTTTTGTGTGGAGCAACCCATTTTATAAGT
TTGTGGACATATTCAGTGCATTCTAAAACTGTAGTAATAGTGATGACTGT
TGCAAAAATGTCCACCGCTTTTGTGTCGTGTGTAACAGCTTTAACTCTTG
TGCACATTATTCCTGATTTGTTGAGTGTCAAAAAGCGTGAAATGTTTTTG
AGGAAGAAGGCTGAAGCGCTTGACTGGGAGAGGGGCCTAATCATTAAGCA
AGAAGAAACTGGAAGACATGTCAGAATGCTAACTCATGAGATCAGAAGCA
CTCTTGACAGAAACACTATACTAAAGACCACCCTTGTCGAGCTGGGTAGG
ACTCTAGATCTTGAGGAATGTGCACTGTGGATGCCATCACAAAGGGGTTC
CAGTTTACAACTTTCTTACTCTCTTAACAATCTGATTCCCTTTGGCTCAA
CTCTACCAATTAATCTTCCTATAGTAAATGAAGTTTTCAATAGTGCTGAT
GCAATACGAATCCCACATACATGCCCACTGGTGGGAATTAAAACACATGT
CGGAACATATGTTCCTCCTGAGGTTGTTGCTGTTCGTGTACCTCTTTTAC
ATCTTTCAGATTTTGAAGTAAATGAGTGGCCAGAAATTCCTGCAAAACGT
TATGCTGTGATGGTCTTGATTCTTCCTCTGAATGGAGTAAGAAAGTGGCG
TGACCATGAATTGGAACTGGTTGAAGTAGTCGCTGATCAGGTATGTGTTG
TCTACTTTATTTTGTTTACTGCAGCTAGATTTACATGTCTTCTTCATATC
ACCTAAACTATGTTTCAAGATTATTCCTTTAAAGCAACTAATCTCAGCTA
TCAATTTGTTCTTTTTTGCTCAACATCTCAAGTAGAACTTGACTTGTGAA
CATTGTTCTGTTTTTTCTAGTCTTTATTTCTACAACACAAGAGAAAACAA
CTTGTAGTCAATAATCATTATACTTCTTCACAGGTCTTGTTGGCTTAAAG
CTACTAATTACTTAAAGTCTAATTCTTTTACTAAAATCTTGTGAATTTTA
TAATTCAATTGATAATGCTTATCTTATAAAATTTAAAATTACAGATAATA
ACAGCAGAGTGATAGAAGTTACATGTCTTGAGGGTAATATTGATTTTGTT
AAGTCATAGATATACAACTCAAAATGAGTAAATAATAATAATAAAATAAG
AAACCCTTTTTTACTTTATCCAAATTCAGCTTAAGTCGGTGCAAGTCGTA
AGTTTTATTTGATAAACAGACTAAATAAGTTTGTTTACCAAACAGCAACT
AGTCTTCTTATAGAATTTCAAGAAAAATCCTATTAATTCCAAGGAGAAGT
TGTATACGCACTATATAAATGTTTAGGGTTAGGATAACACCTCGATAATT
GACTAAAAATGTACGTTATGATTTGCCATGTGTAAATTATAAAATATAGT
TTTGTAATTAACATATATATTATTCACCAGCTTGTATAGGCTAGATTAGT
TTGTATATGAACACAAGACCATACATATCGAACCTAAAGCTACTCATTCA
GGAGAATCACTTTCGACCAAGAGCAATTGGCAATAACTTAGAATTTATAT
TAACTAAAAGTATCCAGAAAGAAAGCAGTTGTCTTGGTTATACAAATTAC
CAAATAGTTAGATATATTAAGAAAATAAAGTAAGGTCAACATATATACAT
AATACTTATTGTTCGTTTTAAAAGAATTGATTTAGTTTCTTATGATGTCA
AATTTTATACATATTTTTTCCTGGGTTCTCTCATGGAGGAGTAGGAAAGT
TTTGGATGGTGTTGAAGTAAAGGAGAACAGAATAAACAAGAAAAACTCTA
CAAAGGACTTGGAGAACTTAAAGTGCTAATAATATGTTGAAGTTAGAATA
TGACCGCTAGTTTTGGGTGGTGCGGTAAGTAGCATTTCCAAGTGAAAGCT
ATGCTCTTTGTGGCACAAGTAGCTGAACTTAGTTTTACGAGTTCCAATCT
TTTTTTCTTTAGTTATTCATACATTTTCTTTTTGTGTTTTTTTAAATCCA
CTGTCTTTTGGATTAGTACAGAAAACCATATCTCAGGTGAAATAATAGAG
GATCCAAACAACCTGGAAAGCATATAACGTCCACTAGGATTATTTCTGTC
TGATTTTAAGAAAGATAACCATATAATTGAAACATAACCATAAAATTGTC
CCTTCTACTTTTGCTTAAAAAAGAAGCAGCTCGTAAACAGATATATTCCT
CACTGAAAGCAAAATAATTTTTTATTAATGTGGGTAGGTCAATCACAAGG
AAATTAATATACAGACACACATATTGCCTCCGCTGAGTTCGAACCCTCGA
CCTTTCGGAAGGATGAGGAAAATCCTATTACATTTCCAAAGTTAGCTATA
CATAATATGATAATGCAAGTTTTTCCTCATTTTTGTTTCAAAACAATCCA
TTTTGTTCCTTTATGACTTGGATAAACATTGTCGATTTATCTGGTTTCTA
GAGCTTACTAAATTTGACCAAGCTATGTCTTTCACATCTTATGGAATTTC
CCCCTCCCAGTGGGATGATCATAAAAGTTAAAAATAAAGACAAAAGGTTA
TCCACAGAAAACAACAACGATTCTATGCAACTCCCTCGTGCTCAGTCTGC
CATATTGTTTTTACAGGTCGCTGTCGCTCTTTCACATGCTGCAATTCTGG
AAGAATCTATGCGGGCACGTGATCAGCTCATGGAGCAGAATGTTGCTCTG
GATTTAGCACGACAAGAGGCAGAGATGGCTATTCGTGCTCGCAATGATTT
TCTAGCCGTGATGAACCATGAGATGGGGACACCTATGCATGCAGTTATCA
CCTTATCTTCACTTCTACTAGAAACAGAATTAACCCCAGATCAGAGAATG
ATGATAGAGACCGTACTTAAGAGTGGGAATCTTCTGGCAGCACTCATAAA
TGATGTTCTAGATCTTTCTAGACTTGAAGATGGTAGCCTAGAATTAGATA
ATAAAATCTTTAACCTTCATGACGTATTTAGAGAGGTAAAACTCAAAACT
GCTATTTAGTCTTAATATATATTAGTACTATGTCTTCACGATACAATTAT
TATATTTCATTTGTGTGCAGAGCATGAACCTTATAAATCCTGTTGCCTCT
GTAAAGAACTTGTCAACAAACTTGACACTGGGTATTGATCTACCGGTCCA
TGCTGTTGGTGATGGTAAATGGCTTATGCAAACTATTTTAAATGTTGTGG
GAAATGCTGTAAAGTTCACAAAGGAAGGTTATATTTCAGTGGAAGCTTCA
GTAGCAAAACCAGAGTATTATAAATACTTGGGGAATCCGGAATTCGTTCC
CATGTCAAGTGATAATCACTTCTATTTACTAGTGCAGGTCAGAGATTTTT
AATTTTTTAGTAGATTACTTTGTTGAGATCTTCAGTAGTGGACCGATAGT
TTATTCAATGACAAACGCCCCTCTTCATCTCACCAGCTCACCCTGGTAGA
AAAGAAAGAGCAAAAATCAGGAGAGGCTTGAAAACAATAGTTGTAGCAAG
TTTTGATTTTTTGTTACTCCTTTGGGTATTTTACATAATCAAATTTAGTT
TTCCCTCAAAGATGCTTCATATTATTTGACTAAATAATTTATTTTTCTCT
CTATCTGCAGGTGAAGGATTCTGGTTGTGGAATTAGTCCTCAAGATCTTC
CACTTCTTTTCACCAAATTTTTAGAGTCTGGAAATGCCTCTTCTCGAAGC
AATTCTGGCACTGGACTTGGACTTGCCATTTGCAGAAGGTAGGAGTAGGC
TATTTTGTTTGGAGAGATTATAATCCATACTTTGTAGTTTATCACTGGAT
CAATAGTCTTTAAAATACTAATCCCATGTTTGTTTTGTTAAACATGCCGG
GTAGACCATCTAATCTCCTGTAGAACATATTTCTACACTTTCTAATTCCT
GGACTATATTCCTATGTAGATTTGTATAAAACAGATGTCTAAAATTATAA
AATGATTATAGTTCAGTCCTCAAATATCCCTCAGATTAAATCAAATGTAG
ACTTAGGGTTGACTGGTATCACAAAAGGATTTATTTTATTAGAATGCAAT
GCCCAACCTCTTCTTCATATACAATTGCTTCAATAGTTGTCTATCCTTTC
CTCTCAATCTGGCTTGGTATATTTTTAGGTTCTTGAATCTCATGGGAGGT
CATATTTGGATCGAGAGTGAGGGCCCAGGCAAAGGCAGCAAAGTTGCATT
TATCGTGAGACTTGGACTATGTAACAACGCAAGTGAGCCAACAATACAAC
AAACAGTGATGCAAGGGAGAGCTCACAGAGGTAGCGGCGATCTCATTGGA
CACAGACTTTTTTCAAGAGACGATTATATAGCTACTTACATTCCACGTAA
TCAGAGAAGTTTTTAGTCGCAACTGGTGCTCCGAGGAAAAAGATTATGTA
GGTTTAAGTTTTCAGGCTCACTTTTCTCTATTAGGTAACGATTATTATTG
GATTTAGCAGTCATGCTGTTGTTCTAAGGTCGCGGGTTATTACAACTTCA
AATCACTGACTAAATTGTACAATAATATGCAGTGTACCCTGCGGAGACAC
TTTCACCAGTTCTGGTTTTACACCAATTAGTTTGGATTTGCTTCATTTGA
TTTC