| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017386385.1, is a part of gene, LOC108214402. |
| The genetic_marker, MK005709 K3153, is located in gene, LOC108214402. |
| 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_017386385.1 | XM_017386385.1 | mRNA | DCARv2_Chr3:31899032..31906727 |
TGCACGATCGCTTTCTTAAATTTTTTACTCTGGAACTTTCGTTCTCTGCA
AATTAAATTTTCCCATATACAGTAGTAAAAACATTATTTCCTGTAATTTT
GTTTATTTGCACAGCACTCCATCATTGAATCCATTCACCAACGTGATGAC
TCGCCTCACTGCCCAGTACGACGCCGTTTACAACGCCCCAGAACAATCTG
CCAGAGGTTCCTCCGTTAGGGTTCTCTAATTCTTTAATTGACTCTCAGTT
TAATAGCCCTAATTGATAATCTCTTGTGTTGCGATCTCGATTTGTACTAG
TTGTTTGTGTTTATATAATCTCTGTGTATATAATTAGTTGAGTTATGGCG
AGTTCAAAACCACAGAGATCGCCAGCTGAAATCGAGGATATAATTCTTCG
GAAAATCTTCCTTGTTTCGCTTCTCGATTCGATGGAGAGCGATTCGAGAG
TAGTTTACTTGGAGATGACGGCTGCTGAGATTTTGAGTGAGGGTAAGGAC
TTGAGATTGTCTCGGGATTTGATGGAAAGGGTTTTGATTGATCGCTTATC
GGGGAATTTTGTTGCGGCAGAACCGCCTTTTACTTATCTGTTAGGGTGTT
ATCGGCGTGCGTATGATGAGGGGAAGAAGGTTTTGTCGATGAAGGATAAG
AATTTGAGTGCGGATATGGTTGCGGTTATTAAGCAAGCTAGGAAATTGGC
GGTCTCGTATTGTAGGATTCACTTGGGGAATCCGGATATGTTCCCTAATT
GGGACAATGCTAATGGTTCCAATAAGTCGAGTGTGTCGCAGTTGTTGCCA
TTGATTTTTTCGGAGGTTTCGAGTTCGGTTGATGGCTTTGGAGGGAGTGG
TAGTGCGGCCGGAGTGTCGTGTCCACCGGGGTTTTTGGATGAGTTTATTA
AGGAGTCGGATTTTGATAGTGTGGACCCAATTTTGAAGCAGTTGTATGAG
GATTTGAGGGGAAGTGTGCTTACGGTTTCTGCTCTGGGAAACTTTCAGCA
GCCATTAAGGGCTTTGTTGTATCTGGTTAATACTCCGTCCGGTGCCAAAT
CTTTAGTTAGCCATCGTTGGTGGATTCCAAAGGGTGCTTATTTGAACGGC
CGTGTGATCGAAATGACGAGCATATTGGGCCCTTTTTTCCATGTTAGTGC
CCTGCCTGATCAAACCATATTCAGGAGTCAGCCTGATGTCGGGTGAGTCT
TTATTTATGTACTTCATTTATTGTTGGTTCTGCTTAACAATATGTTATTT
TACACTGCAATATTCAGAATGATTAAGCTTGTTTACCCTGTAAGATGTAC
ACTGTCATCATTGGATGTAAATTATGGACTGCCTATATATCCGAAGCCTA
CTGCATGTATTTGGCAAAATGTGACAGTGTATACAAGATGTTTGTGACAT
GATAGGTTGGACCCGTTGTCAACTGTTTAATATTTTTATTTTAATTTTTT
TTTGGTTAAACAAGGATTATATCATCTCTATGCTTGAAACTAAATCACAA
GTTGTGCAAACCTAAAGGTTAATAATGCTTGTTTTTAGCTCGCTTTTACC
TTCCCTCCCTTTGCGATGGATAAAGATTCTTCTTCAATAAAGACATTATT
TCTATTGGCAATTGTATTAGTGTGTGATCCATTATATTTTCTTCTGCCGT
AATGGGTAGCAGTTGGATAGCCTTGGATCAATCTTTGCAACGGCTTTTGG
TTTTTTTTTTTTGTCTTCTATTGTATAATTGATTTAGCATGCCAGTGTAA
TATTGCTAAACTATTGATTGTCTACTTGAATACCAGCCAGCAGTGTTTTG
CAGAAGCATCTACTCGTCGTCCAGCTGATCTGTTGTCTTCATTCTCAACA
ATCAGATCTGTCATGAATAACCTATATGACGGTCTCTCTGAAGTTCTTAT
GTGTCTCCTAAAGAATACAAACACACGTGAAAATGTTCTACAATACCTTG
CAGAGGTCATCAACAAAAACAAATCAAGGGCTCATATACAGGTAAATCCG
CTTCTGAATATAAAGTTGTTCATAGAGTAGTTAGAGATACAAAGATGCTG
ATTCTTGTATTTACATTTTACAGTATACCCGTAATCTGTATAGGCTAACC
CTGACATGATTTGGTCTTTAGGTTGACCCAATATCTTGCGCTAGTTCTGG
CATGTTCGTGAATCTCAGTGCTGTTATGCTTCGCCTTTGTGAGCCATTTT
TAGATGCAAATTTAAGCAAAAGGGACAAAATAGATCCTCAATATGTATTC
AGCAGCAGTCGTTTAGACTTAAGGTTCAAGAGTTTTATGTTAGCCCAAAC
ATTTTGTTATATTCTCTTAAGATTTTTTACATGTCTACATGGCCTCTATA
ATGTTTTGAATATTGATCAATTTCAGCGAATTAACTGCATTGCATGCTTC
GTCTGAAGAAGTTACCGAGTGGTTTACAAAAAATAATCCTGGGAAAGTTG
ATGTCAGTGATGCTAATAGTGATGGTGAGAATCGGTTGCTTCAGTCTCAA
GAAGCAAGCAGTTCTGGCAGTAACTTGGGTGGTTCAGCTAAATACTCTTT
TATTTGTGAATGCTTCTTCATGACTGCAAGAGTTCTTAACTTAGGACTGA
TAAAAGGATTTTCTGATTTTAAGCATCTGGTACAGGTATTAAGTAAAAAC
CTATTGACAAGAATTAATCATTTTTGTCTTCTTTTTCAGCAACCTTGAAT
TTAAATAGTCATAACTCAAATGCACAGTCGGTTTTATTGAGTGATGCTTC
ACATCTAAGCTCATTAGCTCAAAATACATTTAGGATATCCAAAGAAGTGA
AGACAGTCTAGCCTCATTAAAGGCAATGCAGGAGCAAGCACCTTCTCCCC
AGCTGAATCAGAACATAGCACGTCTTGAAAAGGAGCTAGAACTTTATTCG
CAGGAAAAATTATGTTATGAAGCTCAGATACTTCGGGTATATCGTCTTTG
CTTGCTCAATTTCCCAGTGATAGAGTATTTATACACAGGATTAGATAATT
TCACTGAAAAGGTCCAATAGAAAGCACGAATATTCTGCAGAAGTGAACAT
GGCACATTCCATAATCTTTCAAGGAAGATGAATGGATCGTATAACCTGAT
CACCACTATACTCTAGCAGAATATCCGTGCTTGGGGCTTTAGATGATAGT
GGGATTAATTGCGGGAATTTTTATGTGGAAATGCTATGGGGGAAAAAATG
GATGATGAGAATTTTATAAAATCCCCGTTATATATATATAGGGTCGCGCT
CAAGAGAAAACCCATCCTTAAAATAGAACCTTAGAACCACTAAGGTTCTG
CTGCAGAACCCTAAATATTAAATAGATTTTCAGGATCTAAATCTAAATAC
ATGTTTTTTGCATCGTTGTGTGTGTTCAAAAATAATTTTAAAATATAATA
CATAAACACGACACTTTTTGCATGTGCAGTTCTGCTGCAGAACCCTAATT
AATGTAGAAGGTTCTAAGGGTTCTTAGGCTAAGGTTTCGAAGAGGAATAT
GTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTTTCATA
GATAACTTAAACTCTGCAGTTGACGTTATATCTTGCAGAAGTTACTATTC
TTAAATACCTTATAAGTAAGACCTAGAAAGACTGAAATACAGACAAGGGC
CCCAACCTCGCTATCATAGAGTAATAAATCTGTTTATTGGATTGCGTTGA
TGGGTGGAGTTGATGATATTAGTTTGAGCTGGTAATTTCAGGATGGAGGC
TTTATTCAACAAGCATTGTCTTTCTACCGCTTGATGGTTGTTTGGCTAGT
ACGGCTTGTTGGTGGCTTTAAAATGCCGTTGCCCTCAACCTGTCCTAGGG
AATTTGCTTCTATGCCGGAGCACTTTGTTGAAGATGTCATGGAGTTCCTT
ATATTTGCTTCTCGAATTCCGAAGGCTTTGGATGGTGCAATTCTGGTATA
GATCGAAGTTCTCTTTGCATGCTTATCTAATGAGTTATGGTCTAATATGT
TCGGCTTCATCGTGTGAGAAATTCTTTTTTTTCTCCAACCTTGACAGGAT
GATTTCATGAATTTCATCATCATGTTCATGGGAAGTCCCGAATACGTTAG
GAACCCATACCTAAGAGCGAAGATGGTAGAAGTTCTGAACTGCTGGATGC
CTCGTAGAAGGTTATATTGCATTTACTGTGAAACAATATTTAGATGTCAG
TTTTAAATATTATTGTGCAATATGTTTTAACATGCTGCAGTTCAATTTAA
TACTGTATTCCAGTGGGTCGTCTGCTACATCCACTCTTTTTGAAGGACAC
CAGTTATCTCTTGAGTATCTGGTGAAAAATCTTTTGAAGGTGTATGTTGA
CATTGAGTTTACAGGATCACATACCCAGGTATGACCACTATCTTATATAG
TTATCCTCCAGAACTACGATGTCTTTAGCTTTTCTATCGTTTATGTATCT
TTCTCTTTTCATTTGGTTTTGTTAATGTGTAATTTTGCGGATGTCTTCAA
ATGTATGGCTTTATAACCGGCTATATCTTCTTTGATTCTCATTTTCATGA
TTTGATTGTTAAAATGTCTTGCTGGACATATATTTAAAGGAATGGACATT
CATGCTAGTGTTGATTAATAATTACGCTTGGATGATTATTTTATCACAAC
TTTTTAACTCATATTGATTAATTATATTATAACTTAATTTGAAATTATTG
AATAGGCAGATAAGCATAATTTTCTGCTAATGAGTCTCTATGCATCTTGT
GCAGTTTTATGACAAGTTTAACATCCGTCACAATATTGCCGAACTTCTTG
AATACCTATGGCAGGTTCCTAGTCACCGCAACGCATGGAGACAGGTAGGA
TTGATAACAAATATGTTGTCTTCTTCATCAACGTTTTTACTGCCTGCTGA
CCTTTTTATGACACTGCAGATTGCTAAAGAGGAGGAGAAGGGCGTATATT
TGAATTTCTTAAACTTTCTGATAAATGATAGCATTTATCTACTTGATGAA
AGTTTGAACAAAATACTTGAACTCAAGGAACTGGAAGCTGAAATGTCAAA
TACAGTGGAATGGGAGCGAAGACCATCTCAAGAAAGACAGGAGAGAACTC
GATTGTTCCATTCTCAAGAGAATGTTGGTGCCGATTTAAATGTCTTTTTT
CTTCTACAATTTCAACTTTGTGGTCATGTTGATGTCTACTCCAGAACTTG
TTTCACATATATTTATTTCTCATATTTACTTGGCTTAGTCTTACCAAAGT
GTAGTGTAAAATAAAATACCTGGACTGTCAGCAACCTGCACCATTTTGCC
GTTGCTTCTTATAATGAATGTCCATTTGTTTCTAGATCATCCGGATTGAT
ATGAAGTTGGCAAATGAGGATGTTACCATGCTAGCATTCACTTCAGAGCA
AATTACAGCCCCCTTTTTACTGCCAGAGATGGTATCTTTTCAAATTGGTT
TATTATTTGTATAAACAATACCTGTAACACATATTACATTAATCAGCGTA
TCGCCTTTATTGTATACATATGTTGTTTATTCTTTCCTGCAGGTTGAAAG
AGTGGCCAGTATGCTGAATTACTTTCTGTTACAACTAGTTGGTCCCCAAA
GAAAGTCTCTTAGCTTAAAAGATCCTGAAAAATACGAATTTCGCCCCAAA
CATTTGCTAAAGCAGGTTAGCGTATAAATCATTTTCCCTTGCCGTTTTCA
AATTAATTTCGCATTTGTGTATAGCAAAATAAGTAAAAAGATGAATCTCC
AAACTTATATTAGCAACCAATCGTGTAGCATTAGTAACAAGTTGCTTATC
AGATGATGCAAATTTTATAATAGCTGTATGCTATCAAAATTGAGTTTTAG
GTGTGAGATGACTGTTGATTTTGTGGTCAGTTTGGATAATAATTGTTTGG
GACATGCGACCCTTTAGTTTTACAAGATTTTATTCTCCGACTTATAGAAA
CAATTATCTTCAGTAGTGGAGTAATATATATAGCAGTTCAGAGGAAATTC
TCTGCTTAACTCTGCTCGACTTTGTGTTCCTCAGATTGTCAACATATACG
TCCATCTGGCAAGGGGAGACAAACACAATATATTCCCGTCTGCAATTACA
AAGGATGGTCGCTCATATAATGAACAGGTACTTTCCTCTTTCCTTTTTTA
AAATTTATAACTTTTTAAACTATCATCTTAAAATGTGTTTTTTGACTGCA
TCTTCAAGTAATTAATAGAGGGCATCAATGGATTATATAAAGGCTTCTTG
GGGTTTGGAAAAATCTCTTTTAGCATTGAGAAATGTTGATTTTTTTTAAC
TGTCATGGAATGTTCAAATATGAATTATCATTTGATTACCGGAGTTACAG
TCATCTAGCTTGGAAACATATATATATATATATATATATCCATATCATTT
CCTACGGCACAGAATTCATGGTCTGGACTAACCATCTATGTTACTATAGT
TGTTTAGTGCTGCAGCAAGTGTCCTTCAGAGGATTGGTGAAGACATGAGG
GTCATCCAAGAGTTTGTTGAACTTGGCAATAAAGCAAAAGTTGCAGCTTC
AGAGGCCAAGGATGCCGAAGCTGCACTTGGGGAGATTCCGGATGAATTCC
TGGACCCAATCCAAGTAAGTTCTGTCTTATAAAATTAAGTTTTGCAGGAA
ACTTAAAAATGAGATTTCAGTTGATATGCACGTGTATAGTTTTTCTGTGA
GGACTCCCACATACTTTCTAACATAGCAGAAACTTAGAATGATGATGTAT
AAGTTGATTATTTCTAGAATTTTAAGAAGACTCTTGCGTTGTGTTTTTTA
ATCATCTTTAAGTTCCATTATTAGGACTTTGGTACGAAAAATTTCAATTT
TTTTTCATGCTTTCCCTCTTAAAGAGCAATGAAAATCATTGATCTAGCCT
GTGTGCTTGTAACTCTTTCTTGGTCTTTCTATCCATGAAAGTTAAAAAGG
TAGTAACTAGGTACTTGACATGATCTTGTCAATGTCACAGCTTACCAATG
ATCTTGATTGTGTTAAGTACATTAGTTGTCATAGGCTTGACCATAGGCAA
CAGTGAGGGTATGGAAGAGCTATTCTTATACTATATGTTTGAGTTTGTTA
AACACAAACGGTCTCACTTTGGTTTGTTTGTATGCAGTACACCCTTATGC
AAGACCCAGTTATTTTACCATCTTCAAGGATTACGGTGGACCGACCTGTT
ATTCAGAGGCATCTTTTAAGTGATGCTGTATAACTCTTGCTTCTTTTTCT
TTCCTTTTAAGTTTTGGGGATTAAAATATATCTGTTAGACAATAAATCAA
GGTATGAAATTAATTCAATTCTATGATTTGCAGACTGATCCCTTCAATCG
TTCCCATCTTACTGCCGATATGTTGATTCCGGACATAGAACTGAAGGCAC
AAATTGACGAGTTCCTTAGGTCTAGGGAACTGAAGCGGCATGGTGATAAT
TTGAGCATGCAGAGCAGCAAGGCTACAATCCAAACTACTGATGATACGCC
TTTGATAGAGTAGTTGACGTTTTCAGAAGATATAGTATTATTGTATATGA
GATTGCTTCAACTCTCCAAATTGATGGATCAATTTACCAGTAGCGGTGAA
TTACAGTCATCTTATATCTTTTTAGTATATTTTTGAACATGTAATTAACT
TGAGACTTGATATTCTAGAAAAGCACTTGAGTTGAAAATTCTTTA