| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017368438.1, is a part of gene, LOC108200327. |
| The genetic_marker, MK006293 K3737, is located in gene, LOC108200327. |
| 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_017368438.1 | XM_017368438.1 | mRNA | DCARv2_Chr9:32257934..32263981 |
AAACTGTCCCATTAAGCAACGGTTGTGTTTGTACTGACCCAATCTTTTTC
AAAATCTGAACTGATGTGTGAGTTTAAACTGCTTCCCCACATTTGTTTAC
ACTTTGTTTTAAGTAAGTGAGATTCATTTCTTGGAAACTGTGCTTCTTTG
TCTGGTGGGTATGGGGAAATCTCCAGGTAAATGGATCAAGAAGGTTCTTT
TTGGGAAGAAGGGTTCTAAATCTGCTGCTTCTGCTCCAAACCCAAGACAG
ATGAACATGGTATGATTTATTTTTGTGTGTTTTTGTGAGTGTTTTTGTGT
GTGTTTATGTGGGTATGAAGTGCATTTTGGTAATTTAGTGTTGAAGTGAT
GAATGGGTTTTTGTGTATGGTTGTTAAGTTGTGATTGTGTGATGAGGGCC
TAAAGGAAGATGGTATGATTTATTTATGTGTATTTCTGTGTATTTTTGTG
TTTGTTTATGTGGGTATGAAGTGCATTCTAGTGATTTAGTGTTGAAGTAA
TTAATGGCTTTTTGTGTATGGTTATTGAGTTGTGATTGTGTGATTAGGGG
TGGATTCTTGGAGTTCATGGTGGCAGAAAGATTTAATTTTTGTGGGGGTG
GTTAAGATTTATGTGCATTTTAGTGTTTCAGTGTTAAAGTAAATAATGGT
TGTTGTGTATCGATATTGAGTAGTAATTATGTGATTTTGGGCTGATTTTT
GTAGTTTAGGCTTGCTGAAAGATTAAATTTTGGTGGGGTTTTGTTGAAAA
TTATGTATGTTTGCGTTTTGATATATTACTGTTGAAGTTGAGAGTGGGAG
TTGTTTACAGTTATTAAGCTGTAATTATGTGATTAGGGCCTGATTCATAT
GAATGGGTAATATCTGCATTGGAGTATTCTAATGTTCAAGTCAAGAATGG
CTGTCACATATGGTTATTAGTTGTACTTATGTGATTAGGGCCTGATACTT
GGAGTTCATGTTTGCTGAAAGATCAACTTTTTGTGGTGTTGCCGTGTTGG
GTTATGATTGGTGTATGTTTGTTTTTGTAAACATGGGATATATTTGCATT
TAGTAAATTAGTATTGAAGCAAAGAATGGCTATTGTGTGTGTTATTATGT
AGTGATTATGTGATTTTGTCCTAGTTCTCTGAGTTCGTGCTTACTGAAAG
ATCAATTTTTTTGGGGGTTGGTTATGATATATATGTTATATTGGGAAAAA
TCTGGATTTTGTATTATAGTTTTTAAGTAAAAAATGGTAGACTGATAGAC
TGATAGTGTATATGGTTATTAAGTAGTGATTGTGTATTTAGGGACTAATT
CTTGCGTGCTTACTGAGAAAGATCAAAATCTTTTAAGGTTGGTATTGATT
TATGTGTTTGTATGTATGTATGAGAAATATGTGCCTTTGTAGTGTTGCAG
CAGAGAATGGGTATTGTACATGGTTAAAGCCCTAAAGATGACTTGAAGTT
CTGATCTTTGTGGTGTTGTATGTATGTATGTACATGTATTTGTGTTTTGA
GTTTTTGGCGTTAAAGAAAGATGGGCATTCTTGGTGGTTATAAAGTAATA
ATTATGTGAGTTGATCTTTCCCGTTAAAATTTATCCTCACTCAGATGTCC
GACATATCTGGTGTTCTTTAAAATTTTGTATGTGTGTGGTTTGAAAATAT
TGACATATTACTATATTAGTATTGCATTTAATAAATGTAAGGTTTATATC
AAGTGGTAATTCTGTAATGCAAACCTTTAAATTTTCAAGAATTAATTCCC
AATTGGAGCTTATGCTCACGGATATTGCTATATATGGGTGGAAAATATAC
ACATTGTAGTACTTCATTGTTAAAGCAAAGAATGGTGTATGAAGCAGTAT
TTTTGTGATTGGATCCTTGTAATTTTCAAAAAGTAGTCCCATCAGAGTTT
TATGCTCATAGATAAATCCAATTGATATGGTGTTTATTAAGTTAATATGC
AATCTCCTTGACTATGAATTCCTCTTTGGTTTTGCAGCCAATTCTTGGTA
CGAGTGCTAGTACAAAAGAGAACCTACCAATCAAGAAAGAAGAGGCTACT
GTATCCCCTAAAGCTGAACCAGTATTACCTTCACCTGATATTCACAATGA
CGAAAATGCACCCAGAAATATCAGTCCAATTGACGACTCTGAGAAAAGGA
GGCTTGAGCAAGCTGCTATCACGGCACAGGCTGCTATCAGAGGCTATCAG
GTTCTCTTGCTCTCAAGTTATCATCGTTATCAATATATATAGAAAATGTT
CCATAGTTGTTATATACGCTCTCAAAAGTTGTTGAATATCTTTGCTTCAA
TACAATCAACACTGTCAGTCCAAGCTCATCTGTACTAATAGTTTGTTATT
TGTTTCAAGGCTCGTGAAAAACTCCACTCACTTGAGGCTATCACAAGGTT
GCAAGCGCTAGCTCGTGGTCATTTAGTAAGGCGACAAGCTGTTGCTACTT
TACAATCTGTGCGAGGAATAATTAAAATTCAAGCACTTGTCCGTGGCCAA
AGAGTGCGGCGCTCTATTGGTAGTGAGATTCGTGAAAGAGAGCCACATAA
AGAAATTGTAAGTGTAGGCAACCTGTCTCATTAATCTTTACCACTTTTGG
GTGCCTTGTGAAATGTATAACCATTATGCTCTCTGAATATAAGTTTGCAC
ATTACTTCGAGGTGATCAAAAGTACTTTAGGGTATTCTTTCTTTTGGCAC
CTAGTGATATATGGTTGTTGGTAATATAAATATATTATTTAACATGATGT
TTTTTCAATTCAGGATGATCAGTGTTTAAGTTCTTTTGGAAACATAGGAT
CCCAGCGAACAGAGATGCTCTTGAAAACTGCATTTGTTGGCAAGGCAAGT
TCCATATATTATTTTTCACTGCCCTTCAATCAATTTTGCTGAATCATTTA
TGCAATACTTGCACAATGCTGGCTTCAGAAGTTCAATTTAATATCATTTT
TTATCCTAATATTCTATTTTCAAATATATGTTTTGCTTTTCTACTGGGCA
AAGGGTGATAATATTATCATAGAGGTCTTTGTGTGAGAACTAAGAGCATC
TCCAACCCAACACTAAAACTCTATAATAGTGTAACTTTAAGACCAACTCC
AACCCAACTCTTTAATATTGTAAAAAAAACACTAAATGAATTGTGTGACA
CCAAATTTAGTGTCAAATGTTCATATGGTGTATTTTTACACCATTCCAGA
GTTTTTTAAAATTCCAAGTATACCCTCAGGTTTATATCCTATTTTATCCC
AACAAAGGAATTTTTTTTCCTGTAGGTCCCATTTGTATCCTGTTATATCC
CAAATTCCCAATAAAACAAGCACTTTTGAAAAAGTTGGGAGGAATATATC
TTGTTATAGACCAAAGATTCTTTTTGGCGTAATATATAGTGTAAATGGGT
TCAAGTTGGCTTTACAAATTCAGTAAATTTAACACCATAATAGTGTAATA
TTTACACTATTTTAGTGTTATGGGTTGGAGATGGTCTATTATCTCAACTT
ATAAGATTTTCTGTTTTATTATTTGTAATGTTGAAATTATGCTTTTTTGA
AATCCAACGATATGAAAGGTTACCTTCACTTTCAGCTTATTTCTTCAATG
CCTGCTGCAATGCCTTTGCAACTTTGTTATGAACCTGAAGAACCGAATTC
CTTATCGAACTGGCTAAATCGGTGGACCTTGTTACAAGTTCTTGGACCTC
ATTCACAATTTAAGGAGACCATTGGTGTAACTGGCAGCAGTTCTTTATCA
GTTGGTACTGATAAAGCAAGATCAAGAGGCAGTGTTTCACGGATTACTTC
TTCTGATAATGACAATGGTTTAAAACGTAGTGTTCCGGAATCTGAAAGAA
ATAAAGTCAAGCTTAAGAAAGTTACAAAAGATCCTGTCAAGTCTATTCAG
GAGCACCCACAAAATGGGACAAAAAAGGTTCTACGTAACCCCAAAAAGGT
ATCCAAACCTCTGGTAGAAACATCTGTTAAAGCAGTGGCTGGTTCTGAAA
GGAGAAAACATTCTATTGGGAAGTCATCAAAGTCAGATATCTCAGAAGGG
ATTAGCAACCCTGTTGAAAAAGTGATTGAAGTTTCAGAGAAGGCAGAGTC
AAAACCATCTGATGTTGAAATAAGTCAAGAACTACCAGCAGAAGGAACAG
ATTCCAAGTTAGATAATCATTCTTATGCTCCTTTGCAACCTAGTGAAACT
CCAGTGCAACAAAAGGAGGAAGTCACTCCAGTGCAACAAAAGGAGGAAGT
CACTCCAGTGCAAACAAAGGAGGAACTCACTTTAGTAGATGAGGAAATTA
AAAAAAAAAATGCTCTAATTAATGACGAAAACAAGAAAGCCAGTATGAGA
AGAGCTTCACTTCCTGCTAAGCATGATTATTTAGAGAAGGACATACATAG
CACACCGAGAGTTCCCAGCTATATGGCGGCTACTGAGTCTGCAAAAGCTA
AGCTAAGGGCCCAAGCCTCCCCAAACTTTGACCAAGATGATGCTGAGAAG
TATGCTTTAAGGAGGAGGCATTCTCTGCCATCTTCTAACAGTGGTAAATT
TGGTTCATCCCCACGAATGCATAAGTTGATTCAAGCAAGTATAAAGGGAG
GAATGAGAGGAGACAGATCTTTAATGTCTTCCAGAGATAGTAGCGGTAAG
AACTGAACATCAAGTACATAATTACTTTCTAAATACGTCTTACTTTTGCC
ACTAAAGTAAATTCAACAACCAAAATGCTAGATACAATGTGATAAGTTAC
TTTGTTCCCATAATCTACTTGACCAGTATGGTGGTGCACATGCTTTTTGC
AGTGTTTTACTTGCCCATTTTTTTCTTTGAATTATGAAGTACTCGCTAGC
TCCTGTATGCCTGTTGAACATGAGCCATCTCTGNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCCC
CCCCCCCCCCCCCCCCCAAATATAGCTTTTGGACTCCATCTCTTACTATC
CAGCTTATTTCCTGCAATGCGGTTGTTGAGATCTGACAATCAGTGCAACA
TATCTCTTACATAGTTAGCAGTAGAGTATAATTTGATATTCTGATAAAAT
CCTAATACTTTGGGCTGTCCTCTGACGGGTTGTGATTTTTGTGCTTGGTT
TCAGATAGTAGGGTGATCCAAGCAGAGTGGAAGAGATGACTGCACACAAA
AAAGTGAAGTTCTATAAAAGTTATCCTGAAGAGGTGAAAGAAAATTACTG
AATTCCTATGGTTTCTCCAGTTGTCACATTGTTGCAACTGACAAATGAAT
CTGCTTATAAGAAATATTTGATGCCCCGTGTGTAGCCTTGTTTCTCTTCT
TTTTTATTATGCTTTAGGCTAGAGATTTGTCATGTCACTTTGAACACAAT
GATTTCAGTCGCAAGGGTTGCTGTTATCTAGTTATTCCTCTTCTTTGTAA
ACGCGTAATGTTATTTCCTTCATGCAACAGAATGTATAAGAAAAGACTGC
ACATACTTATGATTTACTATAATATTATCAATCTTTTATTCTGTGGA