| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017373838.1, is a part of gene, LOC108204420. |
| The genetic_marker, MK009414 1_49095233, is located in gene, LOC108204420. |
| 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_017373838.1 | XM_017373838.1 | mRNA | DCARv2_Chr1:49088135..49096649 |
CTTTTCTTTTATCATTGTTTACTTGCATGCATAATAAATTAATATCGTGC
AGGTGCGGCTAGGCAATGGAACTAGTTGCCACTGCCTGTTCACTTACCTG
TCTATCTCATATATCCATCTCTACTCCCTGCCTTCTCTGCTAATCTGCCA
TTACTAACCGAAACTTATTACCTTTCCCCTCTTCTCTTCTTTAACATTTG
TGTACTAGATTCACCTTCACATTTACTGGCAGCAGAACAGAAGAGTGTCT
CATCAACCATGCCACTTCTGAACAAGTAACCAGTCTGCAACCTGTAGTTG
AGTCAAGCTTCTTCCATTTCATCAAAGGTCTGTTCTTGTTTCATTTACTT
GTGGTCTCTTTCTTTTCAGATTTCCATTTGGTCTTGTCCATGTTTTCTGC
AGTTTCTTGTTTCATCTGAAAGATTGCTTATTTCACTAATCCCATCAAAA
TCTGCATTTTATTATTTATCCAGAAAATGCACACAACACTGTCTTCTCTC
AAATTTAACCTGCATTTTACCCTTTTCTTTGATTTCCCATATGCATTCTC
ATGGTAGAGTCATATTTACTTAAGCTTCAAGGCTACATCTGACTCAGATC
CTTATGTCTGTAATTTGTACCTATGTTAGTAGTATACATTCAGCGGGAAA
AATAATTGTTCCTCACCACTTCTCACGAGAGAGAACAATGATAAAAACTG
TTCTCCACTCTTTAAACAGAGTCCAGAACAATTATACCGCACATTTTCAC
ATTTTTGATATTGTATTGTTATGCATTAACCCAAGAATATTGTTAATATT
GTTCTCGTGTTAAAATATGAATTCGACATTGTAAAGTCAAACACTAAGCA
TGGGACATGAAAAAATGAAACTGAAAAGGTTTTGTATATATGATTTCAGG
GGAGTTATCATTGGATATTTGGACCCTTGGTGTGGCCATACTTCTGTAAG
ATCAAAAAAGAAAAAGTAAAGTAAGAATGATGATCATGCGAAGAAGACTG
GCTTGTTGTACCAGAGACCAGAACACTAGCCTTGATTTTGATCAACAAGA
AAGTAAGTTCGTTCTTTCAAGTCTTGATATTACAGACTGCACTTTTTATC
TCTATTTTGGTTGAGTATCCAAGTAGTATGTTTTTAATTTTACAATATTA
TTGAATCCGACATTTTTACACACTTTTAATTATTGGATTCTCATTTGAAC
TTGATCCTACTTATATGCTCCCTCCGTCCCTCCCATTTCTTATAAAATGG
GTTGGACACGGAGGAAAGTTAGTGTGAAAAGGAAAGAAAAGTGGAGAAGT
GGTGGGATCATTGACTATTTTTGGTAAGTTTTGAAATGTAAAAAATTGAA
TGGGACGCCCCAAAAAGGAAAGTGTAAAGAAATGGAAAATAATAGTATAT
GAAAAAGAAATCAAATAAATCTGGCGTAAATTATGCTAAATTATTGTCAG
TCTCGTCTGCACTAGCCCACCATGTCTTGACTTATTAGTCACTGATTTCC
ACATGGCTACTGTACAATACCACCTCTACTATCTGTGTTTCATCCAAATA
TTGAGCGGTTTTGCTAAGTTTATAATTTAACGTGACTTATAATTTAATAT
GAATTAAATGATAAAGTTTGGAGCTAGATAAACATATCTATTTGAATAAT
TTTGACTTATGAATAATTATGAATATAATAATCAAAATAAAAGTCATTTA
TAGGTAATTTATATATTATGAGTAATTTTTATCAAAAAAATTTAAAAAAA
ATTTATTCACTGAAAAAATAGCTCAAACTAACTTATGATTCTAAGTCAGT
TTTTAACTTATATCGGATTTTAATTCAGAATCTGAATTATTATACAAACG
AATATTTTTGAACTTAAAACTATAAACAACTTTAAACCTTGACGGGACAA
ACACGCTCAGGGGCTTATTTTTAATATGTTGGCAGACTTGTACCTATTTT
CACAGTCATTTCTGTCTCCGTTTCAATTTATACAAACCTTCTATTATTTA
AATGTATTTCAATATATCTGAAAAACAATATTTATATACAATACGTGAAA
GTACTAAAATTTAAGCCATATTTTCATAACTTCTGTTTCATATCAAAATT
TACAATTCAATCTTTGTAAAAAAAGTAATATGTGAAAGTATCTAAATATC
TATTCTACGTGTTTTTTTTTTCCATATTTATTCTAATCTCTACGTCTTAA
ATATACTTGAGATCCTGTAAAATGAGACATAGCTACGTGATAGGCCGGCT
AGGATAGAGGACTTTGATGAGATTCTCTCTTTATATTCTCAACAAATACG
AATAGTCTTTTTATCGTGGAAAACTGGAAATGTTTGGTACAAAAAGTTTC
AGCTGCAACACAACCCTACTATTTCTAGGACCACCATTTTTTCCTTATAT
GCTGCTAGTACTTGTGGAACCTAGCGTGACCCAGAAGATGCTCTGCATAT
GTTCGGTCCATAATTTACGAGAACTCTCGACCTCTTGTTACCGAGATATC
GGTTTCGACAAGTCATGTAATCGTTACAAAAATATAGCGGAAATAAATTC
GATTATGATTTGAGGAAGGAATGGTACAAGTCACAGGAATGCGTAGGTGT
TATTGATTGACGCAAATTGATGGGAGTGGGCCGGGTAGGGTTTGTTGTAC
ATTAGTGAAGTTGTTACTTGTAAGTTATAGCTTGCATTCCCCCTTCGTGA
AGTTAAATTGTGGGGGCAACATACAGTCTTCTTATTCATTTCTTTTCACA
AGTTTTTTTGTTTGTATTATGATGCTTTTCACACACTATAACATAAAACA
TGGCATGGGATGCAGCATGAGCAGTCTCCAGAGTCCAGATAGTGTCATAT
TTTAAGATACGTGTCACGAGCAACACGTTTTATTGTGAGAATACGAAAAC
ACGTATTAAGATTAGGACAAAAATACTGAGAATACTAATATTTTACTATA
TAATAATATAATAACTAAAATTAATATAATTGTAAAACAATTATTCTACA
TTTTGTGAAAAGTACTGAACAGTTGTTCTCATTATTCTCGCAAATAAACA
GGTCTCATTTTCACATTTTGTATTTTAAAAAAAGTGAAAAAAAATAATTT
GCTGGGAATGGCAGAAGGTATTTGATTTGATTTTGGCCCCGTTTGTTTTG
CAGAAGCAGCTCCTACTTCTGGCTTCTGCTTCTCTTCACCCGTTTGTGTA
AAGAAGTAGAAGCAATTTTAAGAAGCTGAGAATGCTAGCTTCTCTCTCAC
AGCTTCTGCTTCTTTTCCAAACACTTTATTAACTTATTTACTTCTCACTT
CTACTCCACTTCTTTAGTTTAAGCAAGAAGTCACTTCTTTTAGGCTAACC
CAAACGGCCCCTTTGTTTAAAAAAATAACCCACCGAACGAATCTAGCCGT
TTCCTTGTTTCAAACTATTTGAATTATTAAACAATTTCTCCGCTGGTTGG
ATCTAGTAGTTCATTAAAATATTGAAACTTGCATATGCATGTGCTCGCAT
CTGCTGTTTGCTGGTTTGACAATCACATCCTCATGCTAACGGAGAGACTT
GCATTCTCTTAAAGAATTTATAAAAATTGAGAATCAGAATTTATTATTGA
CCTACCACGATTTATCAGAGATATTTTTATAAATGGATAATTTTTTGTCA
AATCGGAGTCGACAAATTCAGAAAATATATTTTAGGGATTAAATAAAAAA
ATTACAATAAATCAAAGATTTTTAGAACGCATCTAAATAGTGTTAAATCT
ATAATTTTGAATGTTACACAAACAATACATTGACTAACAATTGATCTCCA
GGAATTTTAAAATGCATCTCTCTTGTTCTTTGCCGCTCAATCTAATGCAG
ATCATTCAATAATCTGAATACCCTACTTAAGCATTGTGTATCAAACTTAA
TACTAACATAATTATGAGCATTTTTTTGAATGTTCAACCAGGCATGATGA
CTTACAATGGCCTCGAGAGCTGCATCATCAACAATCAATCTTACGAGAAT
GATAGCGGAACAAGCAGGGGAGATGGCTGCGTAACTGACTCTCATGATGA
AGATGGTTCGAGCTGTTCTTCCAGCAACAATGCATCGGGATCTTTTTCTT
CACACTGGACATCGATGATGAAAGATGAGAAGGGAAGGGAGGAGTTGGAG
CTCTCTGACAGCCCTCGAAAGCTTTGTGTTAAAGAAAAACAAGCTTACAA
GATTGAGAAGTTGGATGTTGAGATCATGAAGCAGAAGTTCGCGAAGCTGT
TGCTTGGTGATGATATTACAGGAGGACGAAAGGGCGTTTCCAGTGCTTTA
GCATTGTCCAAGGCCATAACAAATCTTGCAGGTATGTAGTACTACTTTTT
ACTAGGAGAGTATGAAGTAATATACGCTTAATTTTTTTAAACTGTTGCAA
ACGAGTCCATCTAAAACTTCAGAATCCCTCGAACTTGAGACCTCCGCCAA
ACCTAGCTCTGATATCATGTTAGATAACCAGTCCATCTAAAACTTTAAGG
TGTTATATCAATAGAAACATGAGATGAATATTTAAATTTGCAGCATTGGT
TTTCGGAGAGCTATGGAAACTGGAACCTTTGTCTGAGGAGAGGAAGAAAA
AGTGGCGACAAGAAATGGACTGGATACTATCGCCTACTAACTATATGATC
GAGCTGGTTCCAGCTAAACAACATAGCATCAATGGCCAGACCATGGAGGT
ATATATATCTTGTATCGGAATAGCTATGAGCTAAAATACCATGTCGGACT
AATAACTCTCTTGAAATTATAAGGTGTTAGTAGAAGCCACCAAATAGATC
GTATAAACACTTACATATTGTCACTGAAGCAGATAATGACACCTAAGGCT
CGAGCTGACATCCATATGAATCTTCCAGCACTTCAGAAGTTGGACTCCAT
GCTCATTGTAAGGTGTCTCCAGCCTATCATCAGAATAACCTGGAGTAAAC
CTTAACTAATTTTAAGCATATTGAATTCACAGGAAACGTTGGATTCTATG
GTTGGCACTGAATTTTGGTACGTAGAAGGGGGTAGCCGAGCAGAAGGAAG
GAGCAATAGTTCTAGGCAAAGCAATAGATGGTGGCTTCCGTCACCAAAAG
TACCTGCAGCAGGGCTATCAGATACTGAAAGGAAGAAATTGCTAAATCAG
GGTAAAGTAGTTCATCAAGTTTTCAAGGCTGCAAAATCCATTAATAAAAA
TGTCTTGCTCGAGATGTCTGTTCCTGATTTTATACGGGAGGCACTTCCTA
AGGCAAGCAATCAATACTTGAATTACTATGTCAACGAAAAATTCAGTGTC
AAGGATGAGTTTTGATTACTGTGTACTTTTTCTTTGCAGTCGGGAAAGGC
AAACCTTGGGGAAGATCTTTACAGTAACATGACTGCAGAATCACCCACGG
TAGAAGAGGTGCTTCATGCCCTCAATTTAAAATCTGAACATAGAGCCCTT
GAAGTGATTAACAGGTTGGAGGCAGCAGCACTTGCATGGAAACATAGAAT
GTTAGAAAAACGCAACTATGAATCTCCAATTCATACATCATTGTCTTTTC
TAAAGGATTCAGAATCTGATATGGATAAAATGGAATACTTGTTAAACCAG
ACTGAAAGTCTTGTCCAGGAAATTAAAGCCAGATTCCCAAAACTTCCCCA
ATCGTTCCTGGATGTCACAAAAATCCAATATGGCAAGGTATGTACAGTTT
CATTTATATCGCACAAGAAACAACCTCAATGTCAGAAATATCACTTCTTG
ATGTTCAGTGTTTTCATTCTTCCATAGTAGTAGTCAGCTATTGAATGATC
AGATGCCCTAATAATTCAGCTTAATGTGTTTACATGCTTACAGGATGTTG
GTCAGGCAATCCTAGAGGCTTATTCTCGGGTTCTTGCAAACTTAGCATTC
AGCATACTCAGTAGGATAGGAGATGTTCTGCAGGAAGAAGTTTTAAGTAA
TCCAAATTCCCCTGCTGCAACATTTAACTTTCCTGGAGTAAACCATGTCA
ATCAAAGAATGCCGAGTCAGCATGTGAGACACTTTCTCATTAATCAAATG
AATATTGTAGATGGCCGGTTTCGCGAGCCCAACACTGTCAAGTATAGCAA
ATATGAGTCCTGGGACGATAAACACAAAAGAATGGCAAGTCAGCATGTGA
GACACTCTCTCATTGATCAAATGAATATTGTAGATGGCCGGTTTCGCGAG
CCCAACACTGTCAAGTATAGCAAATACGAGTCCTGGGACGATAAACACAA
AATTAGCATTGTCCAAGGCCATAACAAATCTTGCAGGTATGTAGTACTAC
TTTTTACTAGGAGAGTATGAAGTAATATACGCTTAATTTTTTTAAACTGT
TGCAAACGAGTCCATCTAAAACTTCAGAATCCCTCGAACTTGAGACCTCC
GCCAAACCTAGCTCTGATATCATGTTAGATAACCAGTCCATCTAAAACTT
TAAGGTGTTATATCAATAGAAACATGAGATGAATATTTAAATTTGCAGCA
TTGGTTTTCGGAGAGCTATGGAAACTGGAACCTTTGTCTGAGGAGAGGAA
GAAAAAGTGGCGACAAGAAATGGACTGGATACTATCGCCTACTAACTATA
TGATCGAGCTGGTTCCAGCTAAACAACATAGCATCAATGGCCAGACCATG
GAGGTATATATATCTTGTATCGGAATAGCTATGAGCTAAAATACCATGTC
GGACTAATAACTCTCTTGAAATTATAAGGTGTTAGTAGAAGCCACCAAAT
AGATCGTATAAACACTTACATATTGTCACTGAAGCAGATAATGACACCTA
AGGCTCGAGCTGACATCCATATGAATCTTCCAGCACTTCAGAAGTTGGAC
TCCATGCTCATTGTAAGGTGTCTCCAGCCTATCATCAGAATAACCTGGAG
TAAACCTTAACTAATTTTAAGCATATTGAATTCACAGGAAACGTTGGATT
CTATGGTTGGCACTGAATTTTGGTACGTAGAAGGGGGTAGCCGAGCAGAA
GGAAGGAGCAATAGTTCTAGGCAAAGCAATAGATGGTGGCTTCCGTCACC
AAAAGTACCTGCAGCAGGGCTATCAGATACTGAAAGGAAGAAATTGCTAA
ATCAGGGTAAAGTAGTTCATCAAGTTTTCAAGGCTGCAAAATCCATTAAT
AAAAATGTCTTGCTCGAGATGTCTGTTCCTGATTTTATACGGGAGGCACT
TCCTAAGGCAAGCAATCAATACTTGAATTACTATGTCAACGAAAAATTCA
GTGTCAAGGATGAGTTTTGATTACTGTGTACTTTTTCTTTGCAGTCGGGA
AAGGCAAACCTTGGGGAAGATCTTTACAGTAACATGACTGCAGAATCACC
CACGGTAGAAGAGGTGCTTCATGCCCTCAATTTAAAATCTGAACATAGAG
CCCTTGAAGTGATTAACAGGTTGGAGGCAGCAGCACTTGCATGGAAACAT
AGAATGTTAGAAAAACGCAACTATGAATCTCCAATTCATACATCATTGTC
TTTTCTAAAGGATTCAGAATCTGATATGGATAAAATGGAATACTTGTTAA
ACCAGACTGAAAGTCTTGTCCAGGAAATTAAAGCCAGATTCCCAAAACTT
CCCCAATCGTTCCTGGATGTCACAAAAATCCAATATGGCAAGGTATGTAC
AGTTTCATTTATATCGCACAAGAAACAACCTCAATGTCAGAAATATCACT
TCTTGATGTTCAGTGTTTTCATTCTTCCATAGTAGTAGTCAGCTATTGAA
TGATCAGATGCCCTAATAATTCAGCTTAATGTGTTTACATGCTTACAGGA
TGTTGGTCAGGCAATCCTAGAGGCTTATTCTCGGGTTCTTGCAAACTTAG
CATTCAGCATACTCAGTAGGATAGGAGATGTTCTGCAGGAAGAAGTTTTA
AGTAATCCAAATTCCCCTGCTGCAACATTTAACTTTCCTGGAGTAAACCA
TGTCAATCAAAGAATGCCGAGTCAGCATGTGAGACACTTTCTCATTAATC
AAATGAATATTGTAGATGGCCGGTTTCGCGAGCCCAACACTGTCAAGTAT
AGCAAATATGAGTCCTGGGACGATAAACACAAAAGAATGGCAAGTCAGCA
TGTGAGACACTCTCTCATTGATCAAATGAATATTGTAGATGGCCGGTTTC
GCGAGCCCAACACTGTCAAGTATAGCAAATACGAGTCCTGGGACGATAAA
CACAAAACAAGTTTAGTGACAGGCACACCTGGCCAGAGCAGAGTATGGTG
CTTAGGCAGAGAGGCATGTGGCAGTCTTTCAACGCTTTCCCCCGAAAGTT
CCCCCTGATGCCGCACTCATATATGTTGTAAATACACATTATTACAAGAG
GTGGTTTAGGAAGTCACCAAATATGGCGTAGCAGAATTTTCAGTATAAAC
AGAGGGACAGATCTCATGACCCTCTAGCTCTAGGTAAGAACGTGTTTTGT
GAACATTTAATAGTTAAAGAATTTACTTAATATTCAATATTCATATAATC
TTTTAGATTTTTAA