| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017367721.1, is a part of gene, LOC108199759. |
| The genetic_marker, MK004133 K1577, is located in gene, LOC108199759. |
| The mRNA, XM_017367722.1, is a part of gene, LOC108199759. |
| 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_017367721.1 | XM_017367721.1 | mRNA | DCARv2_Chr8:22754553..22760906 |
| XM_017367722.1 | XM_017367722.1 | mRNA | DCARv2_Chr8:22754574..22760906 |
TTATAACAACAGTAATATACTCTACCTCTGTCCGACGTACAACGTTAGCT
CCAAACTCCCCACTCCTTGCAAATCTCAAACTCCCAGGAAACAGTCTCTG
AACAGGTACTCTGCACTTTCTCCACTGATTTATGCTTATCTTACATTGTC
TACTCATAAGCTGTTTCTAGTGAATTATATGCATATACTTGTATGTATAT
CTCTAATAGATAGCGATTCTAGGGTTTTGTAGAAAGCGTTTAATTTTGTG
TCAAACGACATCGTTTTCGGGTTCAAATACAGGAAACCCTAGTTTGTGAT
TACATTTATAGCTGATTAGCGTCTTTTGTAATTTTGATTTTGTTTTCCTT
TTTACAAATTTGGTCACATATACTCTTTTCATATTGTTTACTTATTATTT
TCCGTCCACTTCAATTGAGCTCTGGCAATTTTAGGATGTTAAAAGGGCGC
GCTTTACGACATAATAGAATGTGCAGCTCAATTGTAACAAAATTGATGCT
TTCCTGGATACAGATGAATGGTTTGTTTTTATTGGATTAGCTGTCCTATT
CTTGATTTGTTATGAATGTCATAGTTACCGTAGAAGCTCTTTACATAAAT
ATACAAATAGTGACTGGTGAAAAGGATGATCAATGTATAATTGGGTGTCG
TATTGTGTGGATTAAATAAGTGAAGTTTCAAGATCACCTTAGTTTTCTTT
AAGTATCAGTAACACTGTTTAATGACTCTAAACAGTCAAACTGCACTTGT
TGATGGTGTGCAATAAACGTGATTTATTTTGAAGATTTTTTGTGTTCCAT
TTTGGTGCATATGACTAGGGTGTTTAGAGTCTTTTTCCACTTCTGTTCCT
AGATCTGTTATAGTGGTTCTTCGTTCTGCTACATATAATTAATTTTTGTA
TTAAATCAGATATATATCTAAAGTTTGCTGGTGTTTGGACCCATCTAGAT
TTTTCATCATCAGAGTTGATGGATCGACAACCTCATGATTACTCCGCTAT
GGCATTTGCACAGCAGCAGCAGCAAGCAGCTAATATTCAACAGCAGCAGC
AGCAGTTTGGTTTTCATCCACAACATCAACAATTCCCTCCATCAGTTCAT
GGTCCTCCCTTTATACAGCCGCATCCTTCTATGCAGCCTTACCCTTTTCA
CCACATGCAACAAGGTCAACTCCATCCACACCCTCCGCATCCTCACCTTC
TTCATCTCCAGCAGCAACAGCAACTCAATCCTTCTTTTCCACCCCATATG
CCCCCCCATATAGTTCCTTCACCATTCCGAGGCTCATATGATTCACCACC
CCCTGCTCCTCCCCCTTCTGATCCTGAACTGCAGAAGTGCATTGATAAAC
TTGTAGAGTATGCAGCAAAACATGGCCCTGAATTTGAGGCGATGGTACGT
GAAAATCAGAAAGATAATCCTGCTTATAGGTTTCTTTTTGGCGGTGATGG
GCATAATTACTACCGTTACACGCTTTGGCTAGCTACACGTCCTCCTGGTG
GTCCCTTCAACCCTCCTTTTCCCTCCACATCTATACCTGTGATGCATCCT
CCTAATCCAATGGTAACTCCATCACCTCCTAATGACCCTAAGTTAAATGC
CTCGGGGGTTGGTCCTGGGGCTACATCCTCTCTGCTCAATGTACCTCAAA
TGCACCAACCGCCTTTTCCACCATTCTATGACCAGCAGCATTCTCAACCT
TTTCCTGGGACTATGGGTGGTCCTGGTCGTCAACACTATGACCAGTCCTC
GGGGGCTTTCAAAGGTCTATCGGGACCACTTCCCTCTGATGTTGCGATGG
AGCTTAATAACGTGCTCAATGGTCTAACTGGTACCAAAGAGTCAATCAAA
GGTGCAAAGCTGTGGTTCATGCAGCGTTCACCATTTGCACCAGCACTGGC
AGAAGCTCTTAGGGACAGGGTATATGCTGTAGATGATTCTGAGAGGCAGC
TACATATACTTTTTCTTTCTAATGACATTTTATTTGACAGGTAAATTCCA
TAACTTCTGAGTTTCTTTGCGTTTATTGCTTTGTTCTTAGACAGTCTACC
TGGCTTATTTTTTTGTTTTATTCCTTAGTAATTCTCTTTTATTGTCCATT
AGTTAGCATAAATACTTGATTTCAGCTCTTTCCCTTTGCCAACTTAGAAA
CCTCTTTCTGTTCAGTAAATCATGTTTTGAATATTGTCACATTATCTGTT
TTGGGCACTCGGAAGGAGTCCCACCTTGAAATCATATGAGTAATCGGTGA
TACAGTAATCTTAATATTGTGAACAGAATAATCTGTATGGAAATAGTTAA
AAGTTCTATTTTTTGTTTAATCTTAGTTGACCTTTTCCCTTGCATAGATG
CTTTCTGTCAAATTTTCAGCTCTTCAATTGTCTAGGTCTACACTTACAAT
GAAAAACTAGGGTTGTGGACATGTTCAAGGTATTTGATGATAAACATGTA
TAGTTCATTAAGTTCATTCTAAAACAGGCTTGGGCACAATCATGCTTAGC
TGTAACACATAATGTTGGATAATTGATATAGACAAGGTCTTAGCGATAGC
AAGTGAGCTGTTTATACCAGTAAACTCTAATCTTTACAGTATTTATCTTT
GTTCAACTTGGATACTGGCCAAGTATTGGATTTGGCAACATTTTGAAAAA
TATTACCTGAAATTGCCTACTACACATACCCATGTTTGAGTGTCCAGTGT
CTGACACGGGTACTGAAGTAAAAATGACACAGATTTCTAATGAAGATATC
AATGATTTAGATAATCTGCAGTGTACCTATGTGTGTATATTGTATCTATT
CTAGTAGGTCAATTCAATTACATCAACTTGTTAATGTATACAAGTCAGGT
TTACTTTTAGATGATTTGATGGATTTATATGGTATATAGTAATAATGTTT
GCAACTTTTCGATGTATATATCAAATATGTAAAACGATTTTGTTATATAG
ACTAGCTTGCATGAATATGCATATTAAATATGGGCATGCCTGTTGACGAT
GTAGTGTGTGGCTTTTGCTGCGTTTGATACTCTGCTTCTTAAAGGTCTTA
TTGTCTTTATTAGTGAATGATCTATTATTAACATTATTGACCATGGTATT
GGGGCACAAACTGTTAAGAGTAAGAGTTTTTGGTAGGATATTCAATGTGC
TTGGTATTTAATTTTTTCCCTCGTATCAGACAAAAATAATTTAAGCCCAA
ACACCATCATCAAATATTGTACAATCTGGTGTTTATAATATACAATAAAG
AATATGCCAACCTGTTCTATTCACTGTGCTGCAAGTGCAAGAGGGATCAG
GTTGTCGCCTAGCTCATCTGATTTATCAGAGAGTTGCCATCCACAATCCC
TTACTCTACGCTTAAACTCTACCAATTCACTGAAACATTAATTGTTGATT
GCATATAGTCTCGTGGTGTATATCAGGAGAAAGTGTTCCTTTAATTTTGA
AGAATTTTACTAATACTGTTATCTCAGAGAATACACCTACCAAGTTTCTA
TCACCATCATCCTTCAAGATATGTTTGAAATCGTTACCCGGGACATGATG
GTGATAGAAACTTGGTAGGTGTATTCTTTGAGATAACAGTATTAGTAGAA
TTCTTCAAAATTAAAGGAACATTTTCTCCTGATATACACCACGAGACTAT
ATGCAATCAACAATTAATGTTTCAGTGAAACTGGTAGAGTTTAAGCGTAG
AGTAAAGGATTGTGGATGGCAACTCTGATAAATCAGATGAGCTAGGCGAC
AACCTGATCCCTCCTGCAAGGGAAGCACAGTGGATAGAACAGGTTGGCAT
ATTCTTTTTTGTGTATACTGTTTAAGGAGCTTAATCAGACTGTCTGGTGA
TTAAAAGTAATAGTAACAAAAACCTGATTTGTGGTTGATGATGTAAGGGG
AATCATGGCATTGTAGGTACCTCTTAGCCTAAAATAGCTACACTATTATT
TGTGAAATTTATGTTGGAAATTTAAGGTATGTCTTATAAGGGACTGGTAT
CTTTTATTAAACAAACACTCTTAATTTAAGTAGCTGAAGTATAGACTGTA
TATTTTATGTCTGACGTGTTTGCTCAAATCTGTGAACCATGACCAAATTT
GTGATAAGAGACTTCAGATTTCAGAATCTGTACAAGTGAGATATAGTTTA
TGTACTCTAACCCTGCAAGAATATACTTTTAACCCTGCACCCACATGGCT
TCCAAAGAAATAACGCATGCTTCATACCATGTTCCTATTTGTTTGTATTC
CCCAAAAGTTGCGTTTTAATATTGAATCTCCACAAAAAGCTTAACCCCTG
GCAGAAGTAGCACCATAAATAACTGTAGCCCACTCTAGTTCCTTTAGAAG
AAAGTCCGTTATGTGCCTATATCTTGTATGTAAAGGATTTTGACTTTATA
AGTGGGAAAAAGTGTTTTGTTGGATATCATACTTTAGACCATTGATAATC
TCGATACATTTCTAATTTTAAAAGGATTCTTAGTCTTGCTGATGGTATTT
GTCTGTATGAAACATTGTTATTTGCTCATTTCATGTATTTTTTCTTGAAA
CATAGTATATTCATGGAGTGTAGACGCACATGCAATGGATAATATGGTGC
TATATGTGAAGTGGCAATATTGGGGAAGGGATTCTAGTGTCTTGAAATAT
GAAATTTGTAAAATTTATGGACTCTGGATGTATATGCAACAAAGGGTATA
TGTGTTTCTATCTGTAATTGTATTTGCTTGTGCATCCTTGTAATATGCAG
CTTGCAAAGACGAACTAATACACATGATCTTAGTAATGAGGCTCTTGCAT
TTAGACCTGTATTGGGTTCCATCCTTGCAAGAATTTACCACAACCCTCAA
AATAAGGAGGAAAATCAAGAACGCTTGCAGAAAGTTTTGCAGTTCTGGGC
TTCCAAAGAGGTATATGACCGTGATACTATTCGTTTGCTAGAGAGTGAGA
TGATCGGTGGAGTGCCAACAAATTCATTTACTGGCCATCCGCAAAGGGAC
TTTTCTTCTGTTTCAGCAGATGCTTCAACATTTTCAGGTAATTGGTTTTC
ATATATATATATATATATATATATATATATATATATATATATATATATAG
GCTCATGATCCACACACACACATATACAAAACCTTATAAGCATGATATCC
TTGCTAATATATATTAAGGTTCCAAATTTAAAAGTTTTCAATTGTGGTTG
GGGAAGTTCAACGTGACCAGTTCATATAACTGTGAAACCTAGCTCTTGAA
GTTGCAAGAGAACTCTTTTGGTGCTAGTTGTTGATTGTTTATCTGCGTAT
TCAGGACTTCCGCATCAAACATCCAATCATAATGTGTTGCATTGGCAGTC
TGACAAACAAAATTTCTCAGATCAAGAGCGTTTAGAAAATCAAGTTCCTT
CTCTATCAGCAATGCCACAACAATTTCTTCAAAATTCTTCTCCTGCTGGC
AGTTTCCCTGGGGCCATACCCATGTTGTCTTCTGCTCAACCTACAAACCT
TCAGTCTGCGCCACATCTTTTGCCAGCACAAACATCTAATATTGGGGAAA
AATTACCACCATATCCTTTGTTCCCACCTGGTCTTATTCCTGGAATGGTT
CGAAAGATGCAAATTGGTAGTGGGGTACCTTACTCTCCTATGAGCCCATT
AGATATCCCAACTATGATACCTCCTTCAACCACATCGCCATCTGAACTTC
TTGAGAGAGTATCAAAATTCTTCAGAGAAATTGGAGAGGTTAACCCTTCT
GAAGGGCCTTTGAATTCAGCTGATGATGATGACGAGTACGAAAGAGATTC
TCCTGTAAGGAAAGGAGGAACCTGCATTCCTCCACCTCCGAATCTACAGG
TGGACCCAGAGACTGGTACTTTACCTGATGGAAGTGTAGAACGGAAACCG
GGATCAGTTAGCTCAGGAAGGCTTGGCCTGGGTGCCACAGCCAATCCTAA
TGAGGCAAGTCAATATGATGATGTTTATTCATCTTACAGGAAGCAACGAA
GCACCAACTATCATACATCTATGAGTGCTAGATCTGCTACTACTACCACC
AGGTAAGAACCAGCTTTTTGATGTGCTAAGCAAAGCAATCAATAGACCGG
GTAGAGCAATCAATAGCACTAGGTTCTATATGGGTTTTTCATATCTTGTC
CATCCTTGCCAGTGGTACATTTGGTAATGTTGCAACTCTACAATGTGCAA
TTGTTTGCTTATGAGGGCAAATTCAGGTTGATGAAATTGCAGGTCACGGA
TTTAATTGCTTGAAAATAGATTTTGTAATTCAGTTTAGCAAAGCAGTTGT
ATTTTGTGATGTTTTGCCAGTTTTAATTTCACTACCTCCGCATTTGGCAT
AAA