| NCBI Gene |  |
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| Relationships |
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| The mRNA, XM_017364357.1, is a part of gene, LOC108196879. |
| The genetic_marker, MK004858 K2302, is located in gene, LOC108196879. |
| The mRNA, XM_017364358.1, is a part of gene, LOC108196879. |
| 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_017364357.1 | XM_017364357.1 | mRNA | DCARv2_Chr7:29834716..29841506 |
| XM_017364358.1 | XM_017364358.1 | mRNA | DCARv2_Chr7:29835101..29841506 |
TCCACACCACATCTCCTGCACCGCCGCTCCACCCTATCACACCCCACTCT
ATTTCAACCTCTCCTGGCTTCCAGATTACACTGTTCCCCCTTCCTCTCCA
GTATAAAAAAACACAGGGGGTTTTATTAGGGTTTTAAACACAAACATATA
CACACAAAAACCTTGTATCTATCTATCTGTACTTTTATTACAATGGCGAA
TCCTAGGTGTTTCATGGACATAAGCATAGGAGGGGACATTGAAGGGAGGA
TAGTGATAGAGCTGTACAAGGATGTTGTTCCTAAGACTGCTGAGAATTTT
AGGGCACTTTGTACTGGTGAAAAGGGCATTGGTCCTGTTACTGGAGTTCC
TCTTCACTTTAAGGTTGTTTCTTGAGACCCCATCTCACATTTTGTCTCTA
TGTATGTAGCTGTAGAGGAAAGTTTGTGTCTTTATGTTTCTTGATGTGTA
TGTGTGTTAATTCTTGTTTTAATGGATCTTGATGTGTTGAAATAGTGATA
TGGGGTGCCCCAAATGTGTGTTTGTGGATGTTTGGATGTGTTTTTTCTGC
TTCTAAGGTGTTACATTATTGATTTATGGAGTAATGTTTTCAACGAGTCT
GAATATTCTTGGAATTTGTTGGGTTACATAATTCTTGAAAGAAAATTTCA
ATATTATTATCTGTAAGAAATTGATTGCATGCATTGTATTCAGAAGATTA
ATTGTAAGTGTCACAGAAAAAATTATACAAGATTTCCACTCTTCTCTGTT
CTGCTAATTTGGAACCCTCTATTTTTCTATGGGCAGCGGTCTCTGGCATA
CATATGCCAGGGACTGTTTACCCTACCCACAGTTCGTGGGCCATTGGATG
AATATCCTAACGGCCAGGATTATAACCTACGTCCAGCGCTTTTTTAGCAC
CGCTGGACGGGGTCTTTTTCCCCGTCCAGCGGTAAAAAAGTGCTGGACAT
ATTAAACTTTTGTTTTAATCCTGGCCGCTGGATATTCATCCAACGGCTGG
GAAACTGATTGTTGGTTAACAGCTCCGTGGCATACGTATGCCAGGGACCT
GGACCCTTTTTCTATATGCAATATTACTTTAGAAGCATCAAACCTAATTA
TGCTTTACTGTGGCTATAAATAATGTGAAGTATGTAAATACTTAATTATC
CCTAGATATGACTAGAAGTTCAAGAAACTGTGAGGGGATAAGCTCCACCA
AGTGAGGGTTTGTACAAGCTGTCTTTTTATAATTCGGAAGGTTTTCTTTT
AATCCTGAAATTTGTTTTAGGATTTATATCTCTCATGTGAATGTCAATTA
TATCTTGGTATACATAACAGGGTTCCTGCTTTCATCGCATAATCAGAGGC
TTTATGGTACAAGGAGGTGACTTATCTGCTCGGAACGGAACAGGTGGAGA
ATCTATCTACGGGTTGAAGTTTGAAGATGAAAACTTTGAGTTAAAACACG
AGAGAAAAGGGATGTTATCCATGGCTAACTCGGGTCCTAATACCAATGGT
TCTCAGTTTTTCATAACCACTACTCGCACCACACATCTGGATGGAAAGCA
TGTTGTGTTTGGTAGAGTCATCAAAGGAATGGGGGTTGTTCGTTCAATGG
AACATGTCATTACTGGAGATAATGATACTCCTACTTTGGATGTTATTGTG
GAAGACTGTGGTGAGCTTCCTGAGGGAGCAGATGATGGGGTTTGCAACTT
CTTTAAAGACGGTGATATGTATCCTGATTGGCCAGCTGACTTGGAGGAAA
AATCTGATGATGTTTCCTGGTGGATGAGTACTGCAGACTTAATTAAAAGT
TTCGGAAATGAACAGTTCAAGGTAGATGCCTTAACTTTTCCAGATGTTTA
AGCATAGCATGAGTTGTATTTATAAATCTTACTTCTGTTTTGTCTCCTTT
TTAGTTTCTTTCTGAAGAATTTTTTGCTATAAAACTTTTAGATACAAGTG
TATATCTAGCTAGTCATATAATCTGACTGCATGAAAGCAATACGTACTAT
GTGTCCTATAAATGGTCATATTCTTGTTATTAGTTCTAGATCAAAGTGCT
GTTTTTGTTACAGAAGCAAGACTATAAAATGGCACTCAAAAAGTATCACA
AAGCTCTTCGCTACGTGGACGTGTGTTGGGAGAAGGAAGAAATTGATCAA
GGTGTGATGCACATTCATAAGGATCCATTGTAGTGTTATTTTAACTTCAT
CTGTTTTGTGTTGATCTCTTATGCATTATTTGTGCTATTGACAGACAAAA
GTAATTCTCTAAGGAAAACAAAGTCTCAAATATTTACAAACAGCTCTGTA
AGTTTCCTGTCATACTTGGAGCTCTGTAATTAGTTTGATGAATAACGAGT
GACTGATATATTGTTCTTTCAGTTAATGATATTTAGTTAAAAAGCAGGGT
CTTTAAGCACATAATGCAAGCTTTTTTCCACTAACAAAAACTTTGAAGAA
GTCTAATTTGTTATTTAAAACAATACTGATTATGACTAATGTTGTCTGTG
GCTGGTAGTCATTTGAAATTTTTTGATATAGTTTTCCTACATAATGTTTC
TCTGATATCGTACTGTGTGAGGGGTACCTCTTTCTTCAAAGTTTCTGCAC
GTTATATAAGTAATGAAACAATTGGAAGGGGAAAATTAAAGTTGAATGAT
TTCTAAAGTCTTAGATTGAACATTCTGGAAAAAATTTCTTGGTTTATCAG
AGAAAATAGCTAAAAGTTCAGACATTATTACAATTTGAAGGGCGAGAAGG
GTGGTTTGAAATGGTTTGATATGCGATGCAAGTTGATTTAGAATAACCAC
CCATATTGTCTTTTTAGGGTGACCAGTAATGATATGTATTGAGCATGTTA
GTGTGCAAGCATTCTCATCTTCTATTAGTACAACAGTCAAACTACTGTGA
TGTAGTATAACTTGTTAAATTTTCTCTGGTTTTTATGCATATATATATCA
ACTTGTCTGCTAATGCTTTAGGTGCTCTCGTATTACTTAAACTTACTTGG
TCTGTCCATTTGACATACAATATGTGACATCTCTGATTTAGGCCTGCAAA
TTAAAATTGGGGGATTTGCAAGGAGCATTGTTGGATGCAGACTTTGCGAT
CCGTGATGCAGAGGATAATGTTAAAGCTTATTTTCGCCAAGGACAGGTTA
GTTAGTTAACTGATATTCTGCTGAGTTGGTTATGGTGCATCGTTGCATAA
TTACTCACCAAGACTTCCCAAATAATCTGTCTTTGTATTGTTAAACTGTG
ACAGCTGCACTTGTGGTGAAACATTTATTCAATTTATAATCATTGATCTT
TGTTTAGAGTTCTATTGTCGCTGCACCCGTATCCTTGCTTCTTAGCTAGC
ATCCTAACAAAGACAACTCGTTTTTTAATCGTGTGAAGTTGAAATATAAT
GAATAAGTTTTCACTTCCTATTTTTAATTTCATAAATTGTAGGGCCATAA
ACTAAATGCAGCTCACCTATCCTATTATTACTATATGTGATATAGGACAG
GGGTAGGTAATGGGTAAAAACAAGGGGGTAAAGGCTTATTTCCGCAGAAA
ATCAGCAAAAAACACGCATAATCTGCAGACTATATGCAGCTCACCTATCC
TATTATTACTATATGTGATAAAAGACGGGTGGGTAATGGGTAAAAACAAG
GGGGTAAAGGCCTATGTCCGCAGAAAATCAGCAAAATACACACAAAATCC
ACATATTCAGTTCATATAATTCAACGTCATTGATTACTGAAGATTACAAC
TGTTTATATAAGAATCCCTGAACTTGGTGAACAAGTAAGGTCCTAAAAAT
ATGCAAACTAGTCCTAATTATAACTACTACCTAGTAACTCTCTATTACTA
TAAATTAATAAAGCTCATCATTATCTGTTCTAATATATATTTGAAGTAAA
TTAATCATAACTAATTTTTCGCTGTGTAGTTTTAGGCATTTTTCCAGTTA
GACAATTATTTAGATGACCTGCCTAGTTTCTATTCTTTGGTATGCTGTTG
TTGCTTATCTTCTGATTGTTTGTGATGTAGAATTTCACTTTACACCTGGA
AGTAAAATTTACCATTTGTCTTGCATGTTTTAGCATTGTTAGTTATTTAT
GCATTAATACAGTTTTTTTGTGGTCCTCTATTGACTGATTTCCTGTTATG
CAAGAAATTTGAAGTGTTACTTGTCTTCGCGTGTAGTTATAATCATGTGC
ATAATGATGTTTCTGACATCATTTAGTAGCGCTTTCAAGTTTGCTGACTT
GTTGATGCAAGCTGTTTCATAATGTACTGTTTTATTCTGAATTCACCAGG
CATACATGGCTCTTAATGATATCGATGCTGCAGTTGAAAGTTTTAAGAAG
GCTTTGGCGTTGGAACCTAATGATGGTCAGTTTGTGAAATCTTTAATTAT
ACTATTGTCATATATATCGTTGTTTCTACTATTTTTTGTTGTAACAAACT
GATAAAATCTCGAAAAGTTTTGACTCTCTGGTTGCAATCTAGCAATTATG
TTCTTTGGTACTAGTATTGAACCTGTAATCATGTGATTTATGTGTATTAT
GTTAGTTGTACAACTACTTGTCTGTGGCTCCTGAAGGGCAGTGGACAGGA
AATGGAGTAGGTTCTCTTACATATGATGTCAAGGACATAGGTCTAGCTTG
ATACTATGAAATAAAGATTGCTGAATGCGCAGGTAGTCCTGAACAATTCT
GTCAAAGTTGGTTGTACAGCTACTTGTTCATTGCTCCTGAAGGGCAGTGA
CCAGGAAATCGAGTAGGTTGTTGTGGTCCAGCTTGTTACTATGAAATAAA
AATTGCTTAATGCGCAAGTAGTCTTGAACAATTAACACCTTTGTCTGTAA
CTCATGGTCAATGAAAATGATGTCTGTATGTAGCTTGAATACACAAAATA
AACACAGTGCTTAATTGATTATTTGTAAATAAAATAGTGGAACAAAAAAA
CTCAAGTTATAGGCTTAAACCTGTGATTTGAATAAAGAAGTCAATAAGTC
ATCTCTGCACCACCCATAGCCTAGATATTTTTATTCTTTCTATTAGCTTG
TTTGTCTACGAAAGAAATATGGATGCTGAGATAAGGGGGTTAGTCCTTTT
GGTGCTATTAATGACTAATGAGCTCTCTTCTCTTGTCATTGTGCAGGTGG
CATAAAGAAGGAGCTTGCCGCTGCCAATAGAAAAGTGAGTGGCTCCAGTT
TCTTAGACTTCATTTTTTTCACATATCTCTATTTTGTCTAAAAAGAAGCT
TTATTCGAACTTGTTTATTTGAACTTGATCTTTTAATTTACATTTATGTG
GAATGTTTTCTAAAAAGAAGCTTTAGGGGGTGTTTGGATGGTTGGTGGGA
ATGGGAATCGGGTATGGGAAAGGGTAACCCAAGGGGTGTGCAAGGAATGA
TTTACCCTCCGAGAGGGAATGAGTTTCCCATTCCACACAAAAATTTTGCT
AATCCAAACACAATGTATGGATATGAGGTTCCGATTCCCGTTGACTGGGC
TCATTAACCATGAACCAAACGCCCCGTTGGATGTTACGTTTTGTTCAAAA
AAATATTTACTGTTGGGACTTGTTTATTCGAACTTGATCTTTTAGATTAC
ATCTTTATGTGGAATGCTATCATTGTCTAGGTTGATGATTCCGAGAGTAT
TGTGGGGTTTAGTGATTACCTACAAATATCACAATTATCATGGAAAATTT
AAATTATTAACTAGGAGTTTGAAATATACCGTACTACAAGAGTTGCAGAA
ATGTTCTTACAGAAGCTATACTTTGTGAGTAAAAACAGTGTTGGATCTTT
GTAACATTTTATACTGAACATTGTGCGGGATTTTTTTAATATATAATGTG
CAGATTGCTGATAGGCGTGACCGGGAGAAGAAAGCCTACTCCAGAATGTT
CAAGTAGAGTTCAGGTAGTTTCTGTTTGCTGGATACTTGTGTTCTCTGAT
TCCGTATTATACTTAATTGGTTTGCTGAATATTCTTCTGGGATTTCCCAA
GAGAAATGTCCTCTTTTTAATATTTAGTACTTTCCAAAAAGATTCTAGTA
ATACCCTGATATAAATTGAAAAGCTGCAAGTTCACGATGTATATTGATAA
TATATGTCATGAATAATTTGTCTCTAATCTTTGTATATCGGAAGGAGAGA
AATGATTCTAGTAGAATAGATTTTCTCTAATTTCAGTGTATGTGAGTAAA
TGTTTTTTTTTAATCAATATTCCAAAGTAACGGATGTTTATTTTGGTTAC
GGCCGCATACTGCAATCTCTTTGTTTTGTGTATTGTCCAGCAAGCAGATA
TCTATACAATGTGAATGAACTTAAATTTGGCATTTCACAATTCAGGTTAC
TTTGGATAGTGGTAGGCTTCTCAAGTGCAGACAATCGGCTTATAGAAAGC
ATCGGGTATTATATTTCATTCACTGTTTTAGTTATATCTGTTGTAAGCTG
ATCAGATTAAAAGCTAGGTGCTCCCTTGTATGGACTATAGTTTCATTCTG
ATGTAATATTTTTCTCTTTCTTGCAGGTTTTGTAGATGATTGAAACATGA
AGTTGCTTTTAAGACAATACGATAAACTCAATGTTTGAGCCATTTTTGTT
CCAAACATTTTGTCAACCTAGGTTGTAGCATCTATTGCAGACTTTAGACC
AAAATTGCACTATTATTGATAAATGAGAGATCATCAGAACGTTTTGTTAT
CTTGCACTTGTGGATGGTTCTCATGTGAACATATGTAGATGATAATTCTT
CCTGCACCTATTCCAGTATTCCTGTTTTACTAATCGCCTA