| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017382809.1, is a part of gene, LOC108211259. |
| The genetic_marker, MK005928 K3372, is located in gene, LOC108211259. |
| The mRNA, XM_017382810.1, is a part of gene, LOC108211259. |
| 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_017382809.1 | XM_017382809.1 | mRNA | DCARv2_Chr3:45083365..45090332 |
| XM_017382810.1 | XM_017382810.1 | mRNA | DCARv2_Chr3:45087062..45090332 |
AAATACTATGAAAGGATAAAAATTAAAAATTAGTTCGAAATTCGCGTGAG
CAGTCTTGTGTTTGGGCCTAAACCGTGGATCAAGTGACCAGACCCATAAA
ACCTCCGACCCATATCAACTCCATCTTCTCCACTCTGAATCTCTGATACA
AAACATAACAGACATACATACCTGCTTCAACACCCACAAATTTACACACA
CCAAGGCCAACATATACTCCAAACAGGTAATTACTAAAACCCTTTTGTTC
CTGTCTATTAAATTTTTAATTGTTTTTTTTCTTTAAATTTTCTTTGGTTG
ATTTATGTTGTTAAATCATTGAATTTAGTGCTTATGTTGCTGTTTTCTTG
GTTTTATTATGATCTGGGTTCTCGAGTTTTTACTGTGAAATTGAGTTTAT
GTTGATTTTGTCAATGAGTTCTTGATAAAAATCCAGTTTTTTTGGGAATT
AGGCTGTGAGTGTTTGAATTTGTATCTCAGCTTGTTTGATTTTTATGCGT
GTATGTTCCGGGATATGAATTTTTTGCTAACTAGATTATGGGAGGGTATG
TATTGGTTATATGTTTTGTTGGTGTATGAAATTCTATTAGAAGACTTGTG
TAATTGTATAACAATGTCTGAACCCTTTATTAGCATAAGCCTGTTGGTGG
GAGCCTGATTAGGTGAAGTGGTTTTGGTGTGTTTCGAGTCAAACGCGGGA
TTTAGTTATTGGGCTGCAGTTAGCGTTGTTGAGAGAACAATGTTTTTGGA
AGGCGTGTGGATTTTGGATGGGATGATGGTATTCTAGATGGTTAATGATG
GAAAAGTATAGGTTGGGTTTTGATGGAAATATATAGGTTGGGTTTTGGTT
AACGGGAAATACATGTGCATGTAAGACGAGGAGAGGATGAATTGTATATT
AAGTTGGAATAAAAGTTCTATTTTTGGGATATGTTACTTGCAAGCGGAGC
AAGCCTTGCTGTGACGTGAGGCGCAAGGTTGCTTCTCATAAAAGTGGACA
TATCTGTGTTGTGGCCCAATCTGAATAGCGCCTGATTGTTGCTATAATAT
TTTTCCCTTCATTATATTTTTTCTTACCCCTTACCTTTCCTCTTTTCTAG
AATTACTTTCTGTCTGTGTTTTAAAGAATGCATAAATGTAAATAAACCGT
ACAAGTCAATTTGTGATTTTATTGTGAGCATGCCATAAAAGTAAACTTCA
AAAGTTTTGCTGACTCTGACAGAAATGTGCCAATTAGAGGCTTGCAAATT
CTTACAGACTAGAAATAATTAAGTTTATGATTCGGAAAATTATTACTAGA
ATTTTGTATGTGTTCACCTTTTATATATTAATTTTGTTTGTGGTTTTTCT
AGTCACTATTATTGTTAAGCAAATTAGTTTCTTAATATTATATCTTCATG
TTCTTTGCAGTATCTTTTTTCCAGATTTCAGTTATATTACTGTTCGACAT
ATGAATTACTTGTAAATTTTATCTTTGATACTTACCGAGCTTACTTATAT
ATTTATATGCGGAAGAAGCAAGGGGGTTGGCATCTGTCCACACTGGAATT
GAAAATTTGTATCATATATTACAAATACTTGCAAACAATTTTAGTAGCTT
AGTTGGTTTTGGGTTTAGTTTAGTTCAGCATTAACAAATACACATTTTGC
ATTAATATCATCAGGTGAGGGGGAAAAATTAGATTAATGACAGAAGCTTG
GCCTTGAGACCCTTCAGTAAACTCTTGCCCAGAATAACAACTAACACGTT
TTTCTCTGTTTTTCAAATCATCATATATCTATAAAACATTTTCTAAGCAA
TCAATGGTAAGTTTCATCAAGTAGTCAGCAATATAGAATGTCTGATTCGC
TCATTAATATGCGGTTGATAAGTGAAAATTTGGTAGTAGTAACAGACCTG
AGCGAAGACAACAATGAAGGTGGATAAATATAGTTTATTTTTCAATTCTC
GACCTAATAACATGATATCGGATTTCCCTTTTAGTATTCAGTAATTAAAC
TTTTCCATATATGTATATAGGTATTTATAATGGGGTCAATGATTGAAGAA
CCTTCTGCACACAATCTATTTCATATTTAACAAGATCTGGTAAATAATCT
TGCAGTAGAATTTAACTTTGATAGTAGGAGAACTTTTGGATCATTTGTTC
AATAGGTGGGGGCAACTACATTTAGCTTATTAAGCACGTGACTTGTTCAC
TATTTATCGAAAACTGTCCTTGTGGAGGAATTGCATTATTGGCTCTTCTG
ATCTTATACTATATTGACTTGTTCTATAAATCTTCTCTCTTTCTGGTTCT
TAAGTTGATATCTTGTTTGCTGATCTGTTGTTTTTCAGTTGTTCATAAAG
AAAGATGAGGCGGTCAGGACAGTATGGCGATCCAGGTGGAAAAGCATATG
TTCCGGCGCAGATGCAACATATGTCTGGTCAGAGAGTAGAACAGAAATCT
AATAATTATCAAGGGAGACAAGAATCCATGACCTCTGACAAGGAACATCC
ATACGGGGCTCCAAGAGGAGATGGGCATTGGAGGTGGGAAAGAGATGGCT
CTTCCCACATGTTCAATGAAGGTAAACTTTGTATAATGAAGCGTTTTTTC
TTTCTTTTGTCCATCTTTCTGCTAAATGTTAGCTTCTGACTTTCAAATTG
CTGCACTTTGTGAGCAAGGTTATTACGGCGCCAAGTCGAGCCTCGGCGCC
CATATACCTTGAAATTGACTAGTCGAAAAAAGTCAATAACTCCTGATGTA
CATATATTTTTTTTAAAAAATATATGATGGCCATGGCCCTGTTTGGCTTA
TCTTATTTTCAGGCATAATAATCTTTTCTTCTGGAAAAGATACGTAAATG
TGTACAATATTTTCTTTTTTTTTTTGAAAATAAATGACTTATTTCTACAA
ATAAAGAATATTAAAGACTTATTACATATGTTATACTAAAAAATATATTA
TGTAAAATATGAACTTTTTTCTAAAATAAGTCCTTATTTTTGTAAAAAAT
GGTACTAATTCAAATAAAAAGTAATAGACAATAAATTCAAATACCAAAAG
TCAAGCATCCATAAGCAAATAAAAACATAATAAGTGCAATAAATTAATCA
CATATAGGCCTCCATCTCAAAGTCATGAAATACTCCATCTTCTCGAGTAT
TCATCTTGGATGGATAGGGAGGCACACTATAATCATCTCCAACATCCCCA
TCATCAGTAGGAGTATTGTCTTCAGCTCCCCCATGTAGTGTTTCGTTGAG
TATAGGTACACACATCACTAGTTGACAACCTTTTTTAGCTTTTCTTGGAA
GAGGGCGTCTTTTAAGTGCTTTGAGGCACCTGAAGCTATATTAACCGCAC
TCCAAAACCTATCTTCAATTTCGGTGATCCACTCATTAGTCCATGCCGAG
TCATCAAATATGAGTGGATTAATTATTTTTTTTCCAAGTTCATGCATCTT
TTGAATTTCTGTTTGTATTGAACATACACCAAATTATTCAAACGTTGATG
TTCTAACATATTCCTCTTTTTTGTATGTATCTAAATTAATCAAATATATA
AAATTTAAATTTGATTAGGCATCAAGTATAAGTAGTTGCAAATTGGCCAT
AAATCCGTCTTACATGTAAAAAAACTTTAAAAGGATTAATTAGAAGAAAC
AAAAGATAATAAATAATAGAATTATCAAAATAATTATAAACTTAAATCGA
AAAGCAGATAATTAATTAATAAAATTATATACATGGGAAAAAGATTTACA
TATATGTATCTATCGATGTATATACACATTGTCAAAAAAGAGAAGAAGAA
AGGGGAAGAAAGAAGATGAAGGAGAGATACAGAGACGAAGAAAGAAAGAA
GAATGGAGAAGGAAGTAGAAGGGAGAAGGAGAAAGGAGAAGCGAGTAGCT
TGCCAGAATCACGTCGACATTGGAAAAGAAGCCGCCGTCCCAGTCGTACA
TCTTTTACTCGTAAGCCTTTAGATCTGCAAAAAGTAAATCTTTAGATCTG
CGAAAATCAAGTCTTTTGCCCCAAAAAGCCCTATTTTTCGATCCGGGTCG
GATTTCGGGCCAGGTCCGGGTAAAAACCCATGGACGCCTTATTCACCAAT
TGTAGCTTGGATGCATATTCCTAACAAAGAAATATATGATATCCTATATT
TTTTGTATATATAGATTTCTTTGGTCACCTTTTTCGAAAATCTCCAAGGT
CTGCATTTGTAATGGTCAAGTTATAGCATGTATAACTATGCCTAGTAAGA
GAGTGACTTCTGTCCGTGGCTAAATTAAAGATTATGAATTTTGATATCTC
GTAGATACATTTGTCACAACGTATTTTCATATCTGCTCTTGTGTGGGATA
GTTTGACTTTTGAGACCTTAAATTTAAAATATGTTGTGCTTTTTTAGATG
GTTTATGGGGCTAGTAGTAATTTAAGAAATTCATAATAAAAACTTGTTAG
ATGCCTCAGTAACAGGAGCTAATTGAAGGTAGCCAACTTTTTTGGTATCT
TGAAGGTGAGATGCAATTTTATGTTCTTTAACCAAAAATTCCGCTTGATT
GTTGCAGCTATATAAACTGAATTGTCAATCTCTAGAGTTTACTTCTTTTA
GCCTCATTTGTTTTAATTATCTATAGCTTTTCATACATACAACTTGATCT
TTTAAAGTTGTTTATACCCTTAATGTTTTTATCATATCATAAAAGATCCA
TCTACACCATTGCTTAACTTGTTCCCATGACAGACGAGTTGTGCACATGC
ACTTAATTATCATATTGTAAGTGAAGATTTTTGAGGAGCCACAAAATGAA
ATGAATTTGTTTTAGCAGATAAATTTCTCCATGAAGTACTTAATTATCCC
TCCCTTTGTGTCATGCTAACCTTAAGCGTTGCCTCTTTTTTACATTATTG
ACCTTTGTGATTTGCATTTTTTTTGCCCAGATTTTAAGCTAGAGTAATGC
AGCTCTCACATTATTCTCCTTTCGGATTTAAATATTTTGCGGAGAATTTA
ACCTAGAGTATAGCAACTCGCACATTATTGACCTTTGTGATTTATGTTTC
TTTGCCTAGAATTGTAATTTATATCTCGTGAATACTTTTTAACTAGTGAC
TATGCGACAACATACTAATATATGGTGTGGTTGCTCGTGTTATAGGTCAA
GGGGGTGATAGACCTAGATCCTACTACCAGGGCCAAAGGTCAGATCCAAG
AATGGTTCTAGAGAGACAAGGCAACAATGATCCTAGATCTCATCCTGGTG
ACCCAAGAATGGGTTCGGACAGACAAGGCAACAATGATGCTAGATCTCAT
CCTGGTGAAGAAGATATGGAGATTGGGTATGAAGATAAACCCATGCTGCA
GACCTTTGAGGGTCTTGAACAAAGATTTCTGGATGACATCATGAAACTAG
CTAAAGAACAGACTGATGCAGAGGATGCTGAGAATGCTAGGCACAGGGAG
GTTAGTTCATAAATATAACAAGTACTTGAATTATTCTTTGCTCCGTAATT
TATCTCTTAATGATAATCTACTATCATAGATGGAGATAGTATAAATTCAG
CATACATCAGTATGTAGGGGTGTACATGGTTTGCCCAAACCGTTTAAACC
AACCCAAACCGGCCCTATTTTCGGCCGAACCAAACCGAAAATTTTAAACC
GTTCTTTAATTGGGTTGAATCGGCTCCAACCCGACTTTAATGGGTTGGGC
ATGGGTTTAGATTTTATTTGGTCAACCCAACCCAACCCGGGGGTATTTTA
ATAAAAATACATTATATATATATATAATATATATACCTAACAAAATTGTA
TATATGTAAAATATAGCTACCCAATTGAAATTATAATATTAGTGTGATAA
AATTGAATTATAACATTGGTATCTTTCCTCGAGTTTCCTTTAAAATATCT
TTCCTGCACATTTGTCATTCGTCTGCTTGCCTTTTGAGAGTTCAATAGTG
AAGCTACTATCCTTTAAAAGTCCAAACTTGTTTTAATGCTCTATAATTAG
TAAGTTGAGTAGCAATTTTAAAACTGCAAAATATGCGATTTAGTAGTTAG
TAACCCGTCAAACCGACCCAAACCAACCCAACCCGAAGTATGGCAAATTG
GGTTGGGTTATAAATTAAATTTAATGGGTTGGGTTCGAAAATTAGCAAAC
CGAATTTAATGGGTTGGGTCGAAAAAAAATCTAAACCGGGCCAACCCGGC
CCGCGTACACCCCTATCAGTATGAATTGGTCACGAAAGATATCCTAATTT
ATTGCTTATTAGCACTTTAATTAAATATACTTCCGTTCACCGGATAACCT
GATGTTCTGAGGCTCATACAAATGTTGAACTTTGTTTTTCAGAGCATAAA
CTCCATCAATTGTCAGTATCAGGAACAACTTGATGCGCTTCGAGCCCGGC
ATGCAGCTCGAAGAGATGAGATCCTTAAGAGAGAAACTGAAGCACGTCAA
CAGCAGTATCAGACAGTAGTGCTGGACAACTACCCTAACAGTGGAATGGT
CCATAGCGACCCCCATGGTTATCCTGCTGCGGAACCACATCAGTACGATC
CCTACGTTGAACGGGCTCGATTTCCGGTCGGGTATAGGGACCATGGGCTT
GATCAAAGAGGTCAATACCATGGCCCCCGAGTTCCTGAAGCGGGATCACG
TTATCGCTGATTTGGTAAAATGTAGCACAACATAATCCTGTAGGGCTTTG
ATATTACCTGTAGTGTTGCTTGTACCTGCATAATTTAGCCATTTGATGCT
GGTTGTTTTATGTTTGTAATGCTTCTTTAGAAAGAATAAAACTCTGTGCT
AGCTTAGCTATTTGAGTAGCTGAAACTCTGTACTAGATTAGCTATTTGAG
GAGCTGTCCGTTGAAAGCCCCCGGTTTCTTGGATGTTTTGCATCTGATCT
ATGTTTCTTTTATAGAATTTGAAATATTTGTTGAGGCGAATGTCAACGGT
TTTGGAAGTTTAGCTTA