| NCBI Gene |  |
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| Relationships |
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| The mRNA, XM_017398046.1, is a part of gene, LOC108223676. |
| The genetic_marker, MK006409 K3853, is located in gene, LOC108223676. |
| The mRNA, XM_017398047.1, is a part of gene, LOC108223676. |
| The mRNA, XM_017398048.1, is a part of gene, LOC108223676. |
| 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_017398046.1 | XM_017398046.1 | mRNA | DCARv2_Chr5:31995172..32002201 |
| XM_017398047.1 | XM_017398047.1 | mRNA | DCARv2_Chr5:31995365..32002201 |
| XM_017398048.1 | XM_017398048.1 | mRNA | DCARv2_Chr5:31996799..32002201 |
ACCTCGAATCTAAATCCCAATCTTTACAGAGGGTTTTTCTTTCCACCTTT
TCTGGGCAGTGGGCAATAATAAAGGACTCCTCCGTGTTGCCTCGTACACA
CAGAAGAGGGGGAAGAGTTTAATCATTTCAGCAGTTCTTTTTTCTTTTTC
TTTTTAATTTTTACTACCGATCAATGAAGGTATCTCTCTCTCTCTCTCAC
GCGCGCGCGCGCACACACACAGTCTATTGGTTGAGTGGCTGATTGATTTC
GTGATTATTCAAGGTTTAATATGTATCGAGAAGTAAGAATAAATGTCTAG
TTGTTATTTAAGTAAGAATAAGTGTCTAGTTGTTATTTAAGTGATTACAT
TAGCCGCTGTTTGTGTTGTGTAATTGTGTTGTTATCTCCAAGTGTGATTG
TAGCCCTAATATATTGTTTTTAATTAATGTGATTACTGCATACAATATAA
ACCTGATGCGTGTATCCTTTGATTCACTTTTCGAGATTGTGTTTGTTTAT
ATCCGTGTCAAGCAATTGGTGCTTTGTTGCTCCATGCTTGTTAGCCGGGT
TAGGTGGTTGTAATTTTTACTCGATGCTTCATATGAATAGAATATAGGTG
ATTAGTGTTTTTATGTATGTATATGTGCGTCGAATGTATGTAGTCAGGTG
CCTATGATATCATCCAGGGCACGAGAAGGTTGTCATATATGTACTTGATC
AGTTCTATGATGGAATTAGATGTTTAGGTTGTGCTCACTTGAGATGAATA
CAATGGAGGAGGAACAGAATAATCATTCCATTCATTTGTCTCTTTAAGTA
AGAAGCAATCGGAATGGAGTGAGAATAATATATCGTTTCATTATTTTTTT
TAAATTATAATATTTCAAAAAGATTGAAATGCTTAACTTTGTGATTGATA
TGATGCTATCTTCTAGAAAGTGTTGTGTTTAAAAGGGATGGACTTATCCC
ACATGTTTGGAATGGAATGGAATTCAACAATTCAAATGGAATGGAAGAAT
GAGTGTGGTAATGGTTCATTCCATTCCTTGACCCAACCAAATAACCTCAA
TTTTCATTCCGCCCAGATTTGTAATTCTCCTGCTGACATTCATTCCATTT
CGGTGAAGCGTACACAGCCTTATTGTTTTTATATATGTGCATGTTTTCTG
TTTTCTCATGTATATGTGTTGAATGTATACAAATAATTTCTTAGGGCTGT
GGAAGGTTGTATATTTATTTTATCCTTTATAGAGATAGATTGATAGAATA
TAGATGACCAGTGATTGCATGTGTACATATATATTTTCTGTTTTAACATG
TGTGCCTAATGTATGTAAATACATGCCTACAAATTGCAATTGTTCCTATG
GCTCTGTAACTGAAAGGTTGTTCTACAATTTACTTGATCCTTTATTGAGA
TGGATATAGATGGTTTTCCAATTTTTTCATTAGTGTGCATAGTATGTATA
ATTATGTGCCTATACTTGTGTCTTGGCATTTGGAAGGCTTTTTGTCCTCA
CTTTTTTGTTGTATCATTGCTGCAACGTAATTCTATTCGTGTTTACTGTT
TTGTTAAATTCTCACGGTTGTCCATATGGCAGTAAGGAAGATGGGTGCTG
GGAGGAAAACACAGACTTTCGTTCTCAATGACAACAAAATTCCCATACTG
AACCAGGCACCCTACTCAGGTTTTAGGAATTTGGGGAAAAGCCAGCTTGG
TGGTGTTATTTTTGGTTGCAAGAATGCAACTCTTAAAGAATGCCTCAATA
ATCAACTCTTTGGTCAGTCCTTTTCTCTATGAAGTCCAGTCAAAATAATT
GTGTGTATACTTTTTGCTTATAAACCTTCTGGAGTAGTTGCAGAAAAAAT
GAACATAATACTTTGAGGCCTTAACTTTCTACTTAGCAGATTATGATATT
GTTTTCTTATGTTTTCAACATCTGATGCCAGAAACTCTTCTCAGGTTTAC
CAGCTCCTCACATGTCATATGTTAAGAACATCGATCCTGGCTTGCCGCTG
TTTTTATTCAATTACAGTACTCGAAGGCTTCATGGCATTTTTGAAGCTGC
TAGCCCTGGAAAACTGAACATTAATCAATATGGATGGACTGATGGTTTAG
TAAAAACATCATATCCTGCTCAGGTACATACCTATATATATATATACACA
TATATATATACATACATACATACCTATATATATATATAGGGCATTGCTCA
AAACTGAACACCCTTAAAAGAAGAACAAAGAAGAACACTTTGGAATCGAA
CATAGAATCTCATCTAAAACTTGAATTACATTCTAACTTTAAGCTAATTA
ACAATATATTTTGAATAATAATAGTATCTAGCATGTTTAACAACAATTAT
GGATTAAAAATAACATGATCCTATGTGATATTAATCATGTAAAGAATATA
TACATGATTCTATTCTGGATTCTGTTTTGGATTCTGTTCTGGATTCTATA
ATATTTCATATTAATAATTTGGATAGATTTGGATGTTAGATTTCATATAT
TAAGTTTAGTTAGTGCTTAACTATGTAATTATAATCATAACAAATCATTT
TTTATGAAAGAAAAAGTGTTATGAAAGTGTTCTGTGTTGTTCTTTTTTTA
AAGTGTTTTGTGTGGAGTGCAACCCATTATATATATATATATATATATAT
ATATATATATATAACATTCTGTTAATTTTTATTAGAACTTAGTGTTTTGG
CACTGGAGTGCACAAGAGACTATTTGCCGCGTCTTTAAGTAATTTCCATG
TTACTTCCTTGCTAAAATGGAAAGAGGGAGGGAAAGATAGAAACGGATAA
AAAGTTACTTGAAAGCGCGGGGTACTTAAAAGTTGGTAAATATGTATTCA
AAAGCGGGGTGTATTTGGAAGTTTTTAAATTTGAAATAAGATTTGAAACA
TTGGAGACATGGTGCTATTTTAGCAACAATCACTTTTTTGTGCTAAATTA
TAGCAATAGGTCCATCTATTTTTTTTTTTTTGCCATAGGTCCATCTATTT
TAGCACAACCATTGTACATGTTCTAAAGTGTGCTGGCAGTTATTTGTCCA
AAATATTACCAGATATGATAAGGCCGGAAGTAATCTACTTGAAATCCAAC
ATGTCGATAAGATATCAGAGTTCTATTTACCTTTTTGGTGTAGATTTGGA
ATTGAGGACCTGGGTTAGGCTTTGGAATTAGATTTACCTTTCACAGGGAG
CCTAAATAACTGTCAGGTTGCTAGCGTGACCCGCTTGAACTTGTCAGTAC
TACAACAACTACAGATGCAACTTTTTAGTTATTTTTATTTCGAGTTCTTT
TCTAGTTCTGTCAATTTCAGTCTCTTAATTTCTGCTACTTAATGAATGTA
GGTCCAGGTCCGTTTGCGTGTTCAATGCCAGTCATTGCATGAAGAGCAGT
TCAAGCCTATAATTGTGGACAATTACTTTAAATCTAACCATTTCTGGTTT
GAGCTGGACCATGCTCAAACAGATAGGTTAATATCTTTGCTATCGTCCGT
TGTTATTGCTCCAAACACATCTGCACTACAACTCACCAAAGAAAGGAAAA
TTCCCTTAACTTCACAATGGAGGGAAAAGGGGAATGAAGGTTTTGACACT
GCAGTTTCAAATGTTGATGTTGCTCATTCCTCTAGCTCAGATGGAAGTCC
GGATGATTTGGTTGTTGACTGTAACCACTCATTTGAAGCTTACTCGGATA
GGAGGACCATAGAGGAAAGTGAAAAGGACATTATGTACATGAAACTAAAA
GAAATGGCCTTTAAAAGATTAGACCCGTCATTATCAGTTGAAGATAATGT
GGTTACAGATGGTGAGAACTCGGAGCATGAGGGTTTGCTGAAGAAACAAG
CAATATCCGAAGAGAAACTTGAAATTACATCAGTCAAGTCACAAGATGAT
CTCTCCGGCCTAGCTCAGGTAATTGATGTCTTCTTATACATTATCTCTGT
CCTCTCAAATAGGGATAGGTTTTGACTTCTATCATGTAAATAGCTTTATA
ATTGTGCTTTTGTTTATATGCAGTTGACAAAGAGGGTGGAAGAGTTAACT
GCTTTTAAAACAGAGCAAAGTCAGAAGATGGAATATCTACAGCAGAAGCT
GGTAATTTTTTTTGTCATTTGTTACATCCAGATGGTCATTGCTGTTTTAT
ACTTGCATTAAAGTGCTGCTTGGCAGATTCAATTGGATCTCTAAGAATTT
AGGCTTTTCTTTAAAAACATGTTTAAGTCTGAGGAACAGAGATGCATTTA
CATGATATTTCAATTCTTACCCATGTTTTCTACAAGTAATGCATCTCCTT
AGGCTTCTAAAAGTGCCATGTCTCAGACTTCTTTTATTATGTTAGTAAAC
TAATGACAGTTTGTACTGTGTTACTATTAGCTTAAAGTATTCACTATTCG
TTATTATCTACACTATGACAGTGTACCCGGTCTCCTTGATACTCTACAAT
ATATTTTTCATCCATAGTTTTACTTTAAGTATTTTTTTTTTAACTATAGT
CAATCAAGCAGCCACAATGTTTTCATTTCTTTCATGTCGAATAATTATTG
GTATCTCACTTTGTACGTCAGGTACACGCGGAAACAGAAATTAAATGCCT
GAAAGATCGGTGTTTGGTTCTGGAATCTAGATCCAATACTTATGTAGCTA
AGGGGGATAACACAGCTAGCGAAGCTTTTACCGAGCTTGATCCAGATATT
AACGAATTCATGTATTTGATTGGAGGATATGATGGACTCCAGTGGTTATC
AGCTTTAGATACCTACTCACCTTTACTGGATACTGTAAAGTCTCTACAGC
CAATGAACTGTGCACGTGCCTACGCATCTGTTGCAAGATTCAATGACGAG
ATATATGTATTTGGTGGTGGAAATTGTTCTGTGTGGTATGAGACAGGTTG
TTGCTTGTAATTGTTGCTTAATATCTGCACTTTTCCGATACTCAAGTGTG
TGTCACTAACTTTAGTCCTCGAACCTTTAGTTGAATCGTATCACCCAGCA
CGCAAAACATGGACTTCACGCCCCTCCCTGAATAGGGTGAAGGGAAGTTT
GGCTGGTGCTACTGTAAACAACAAACTCTTCGCTCTTGGTGGTGGGAATG
GGCATGAAAGTTATTCCGATGTTGAAATGTTGGATCTAGATGTTGGACGC
TGGATTCCTACGCGGTCCATGATTCATAAGGTAATTGTTTTATATCTGTA
GCTGTGTTGATAGTAGGTCACTGCCCTTTGATATATCTGTAGCTGTGTTG
TTAGTAGGTCACTGCAGTCTCTTTGATAAATACTTTAGTGTGTGATGAGA
AAGATAAAATACAAGATTTTGCTAATCGAATAAGTTGCCCCCCCTCCCTT
CTAACACACACACAATCAAAAGATTCTACCGGTGAGTGACAATGAACTGC
ACTCTATTCCCGTGACTATGAACTCTTGGGTATATCTTTGGATGCCAAAT
CGCTGGTGAGTTGAATAGTCAATTAGTCACTCATTTCTCTTTTTTTCCCT
TTCTAAATATATATCTGTTACACTTTCATTTGTGCAGCGATTTGCTTTCG
CTGCAGTAGAACATAATGGAGCTATCTATGCTGTTGGTGGATTTGATGGA
ACACGTTACTTGGAGTAAGATAAAAGTCACCTTTAAAATTGTTCCTCTTG
ACATGCTCCTGCACAAATAATGCATTTGTTCATGTCTGTATGTATCTTCT
TTTACATTATCAACTAATGTGGTGCCAGTTGCATCTTATCTTAAGTTAAT
GTTAGACTTTAGCATTAGTTATCTTGAGTGTATGTTGTCTTATAAATAAA
AAGGACACTTGTGCCAAGCTTTCACTGTCGGGATAAACCAATAAACTTCA
CAGTAGACAGTAGTCGTTTACTTATTTCGGGGGGGGGGGGGGGGGGGGGG
GNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTCCTAGTACAAAGAGGC
CTGCTACTCATGACTTAAGCACTAACTGAATGTCTCTGTTTCTCCATTAA
ATAACATATATTATTAATTTTCATCACAATGTCTATTTTCTCAGATCTGT
TGAAAGATTTGACCCCAGGGAACATACGTGGACCAGTATTGCAAGCATGA
AAACTCAGAGGGGTTGTCATTCTTTAACTGTTTTAAATGAAAAATTGTAA
GTTGATAATAGTTTTTAAAGTTATTTCTGCTGTTGATTAGTTATTTAGTC
TCTAATTTGTTCTAAAATTACAATATTCTAGACTTCTGCCAGTTAAAGTG
CAAGATAACATAATTGCGTTTATGAAAGGAATAATAAAAATATCTCTATA
CATTAGTTAGTTGGAAGAAATGTTTTCCAGGTGAAATTATGTTCATAAAT
CTTAGCACCTTTGTGATTGTAATATGTAAATTTAACTGCAGATATGCTTT
GGGTGGTTATGATGGCAAGGAAATGGTCAGTAGTTTGGAAATATTTGATC
CACGGGCTGGGGCGTGGATGACTGGTGAGCCTATGAACCAACAAAGGGGA
TATGCTGCTGCTGCAGTATTGAAGGATTCTATGTATATCATAGGAGGACT
CGACTGCAGAGAAAATATTGTAGAGACAGTAAGTTTCAATGCGGGATCTT
GAATCATTTACAAAAACCCTAAATACTGTTGCTTAAATATCATATCTTCC
TCTTGCTTATTTGGCAACACAGATTGAATGCTACAAGGAGGGTCAGGGCT
GGCAATTAACAAACCTAAAAGCAATTGGGAGAAGGTGCTTTGCCTCTGCT
ATTGTTTTATAGTATGATTACAACCGACTTGATGAGTTTGTAGTAAAGAG
ACGGTTTTTTTTTTTTGTTTTGAGCATGAGGTAATGATCTGTCTGGATCG
TCTTTTGTGATAAGAGGGTAATTAACTTGGTATCTATTTACTACCAAGAC
ATTTCAACAGTTCTAAATATGTTTATTAGGAAAATTGATTTTGCAAGATT
ACGAGAAATAGATTAAAAGGAATAAGCAA