| NCBI Gene |  |
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| Relationships |
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| The mRNA, XM_017368481.1, is a part of gene, LOC108200357. |
| The genetic_marker, MK004175 K1619, is located in gene, LOC108200357. |
| The mRNA, XM_017368480.1, is a part of gene, LOC108200357. |
| 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_017368480.1 | XM_017368480.1 | mRNA | DCARv2_Chr9:4202279..4208758 |
| XM_017368481.1 | XM_017368481.1 | mRNA | DCARv2_Chr9:4202279..4208420 |
ATGTTGAGCGACAAAATTCAACCGAATTTCTCGTCCGATCCAGTTGAGTC
CACACAGTTGCCAACCAAAATCCCCCCTCCCTCTCTCTGTATATATACAC
CTCTGTCTCCAAGTGCCGACAGATCTTCACAACCACTTTCATTTCTCGCA
TATCTCTCTCCCCACACACTTTCATCATCTCTGTCTATACAACCCACTAC
TCAAGCGAGAGAGAGAGGGAGAGAGAGTGTCCCAACGCATTGAAAATCAG
AGAGAGGAGGCATGGGGACTGAACACTACAGTTGGAGAGACACATACAGA
GGAATGTCAAGTGATAATATAAAGGGCTTAGTCTTGGCATTGTCTTCAAG
TGTTTTCATTGGTGCTAGTTTCATCATCAAGAAAAAAGGGCTCAAGAAAT
CTGGGGTTTCCGGTGTCAGAGCAGGTTCGAAATTAGATACTTTATTATGA
ATTTTTATGGGGTCTGAGAATTTTATTCATTTATCGAGATTATTTATTCA
AGGAGGTTATATTGTTTGTGTGTGTGTGGGAATGTGGTTTTTGTATGAGT
GATTGTTAGTGTGTTTAAATGAAGGTGATCTGGTTGTATTTTCTACTTTT
ATATGTTTTAGAACAGACACAAGTTCACAGTTCCAAGGAACATGGATGTG
ATCTCATACCCGAATATGCTTATGACTAGTTTAAGTTCGAATAGATTGGT
AAGTGGATTCTTGTTGGTGTAACTAATTCTGGCACTGGAAGAATGAAAGT
TAGGGAAGAGGCACATCTGTAGTACAGTTCAGATGTGATTTTGGATTTTT
TTTGTTAATTTGAGTATTTATTTTTTTAAATAGATTATGAGGAATGTGAA
CTTTTCTGAGCTGACGGTGTATTGGGGACTTAAGACTTTAATGTACTATA
ATGAACCGGGTATGTGCGGCGCGGATTGCTTTCATTGTTTGTGTATCATA
CTGTATATGCCAGTTTATGGATGTTTTGCGCCATATCTCCTGGCTTCGGG
ATGTTAGTTTTTAGACTTAATTTTGCTAGTTAATGCAGATCCCCCCCACC
CCACAAAAAAAAACATGATAATTAGGCATTTTTTCCGATAAATTATACTT
CTTGGATAAGGCAGAGGAAAATTTTTCGTCATATATTTTGCGAAGTCACC
TCAGGCCAGAGGTGCAGAATATTTTCTTGCCTCAGCCTATAGATTTTAGC
ATCTGTTGTTTGACTATAATATAGGAGGCCACAATTTTTCTGCTATATTT
GTTAAAATTTGTCAACAATGAGACTTTATTACATATTTTAACTTTCTGAT
AAGCTTTCTTAGTGTGTCTATTTTGACTTGTCGATTCATGACTTAGTTTT
ACTTTGTGTTTTAATTTATCTAGTGCATAATTTTCCGGTGAAAAATAATA
TTCTCATGTGCTTCCTTATGTTGCTTGTGATGGATACTTTCTGGTTACAG
GTGTTTTACGCTCTAATTGGGAACATATCTGTTGACCTTTTTTATTCTCA
GGAGTGGGAGGCTACTCATACTTATACGAGCCACTGTGGTGGGTTGGAAT
GATAACAAGTACGTTCAGTCTGTATGAAATTATGAATAGATTTTTGTAAG
GATATTTCTAATATATGCAACTATATGTTGTAGTATCTTGGCTAATTGAG
AGCTCTGTTCACTTTATCATACTTATACTTTAGTCTGCTTTCCATTAATA
AAATCTATTATATTTTACATTTGCGGAAGAGATCATGCTGCATCATAGTT
TTTTTTAAACTTTTGATAGTAATATGAATCTTCTCTTGATTTGAATCTTA
TTGTTTATTGTTATTTTAACAGTGATTGTTGGAGAAGCTGCAAATTTTGC
AGCTTATGCATTTGCACCAGCTATTCTGGTCACCCCTCTTGGTGCACTCA
GCATCATCATCAGGTAGGGAAGAAACTATCAAACCCTTGTAAATAGATAA
TTTGTTTAAACTGCTAATCACCTATTCATATTGCAGTGCTGTACTTGCAC
ATATAATTTTGCAAGAGAAGCTACATATATTTGGAATTCTTGGTTGTGCT
TTGTGTGTTGTAGGCTCAACCACCATTGTTCTACATGCTCCCCAAGAGCG
TGAAATTAATTCTGTGAAAGAGGTCTGGGATCTTGCTACAGAGCCAGGTA
TATGCTTTTCTTGTAATAGAGCCAAATACCTCATAAACTGCTTTATTTAG
CATTATAGAACACATTATTTATTGGTATTCTACTTTTTAAAGCAAAGTTT
AGATGTCCAGTCTAACAGCCATACCTCTGTCCTGCAGGTTTTCTCTTTTA
TGCAGCACTGGTGATAACACTAGTCTTCGTACTTGTATTTCATTACATCC
CTCAATACGGGCAGACTCATATAATGTGCTATATTGGAGTTTGTTCGCTA
GTTGGTTCTCTATCAGTACGCCCTTGTATTCTATTGTCTACTTTGCTTTT
GCCTTTCCTTCTAATATGTTTTTAACTTCTTCTTCTACTACTCAAGTGTT
GTAATCTTACAGGTGATGAGTGTAAAAGCAATTGGAATTTCTTTGAAGTT
GACATTATCGGGAACAAATCAGCTAGTATATCCCCAGACATGGGCCTTCA
CAGTAGTGGTAGTTTTGTCCGTGATTACCCAATTGAATTATTTGAACAAG
GTAAGCTTTTCCATTTCCCTTTTTATTATCTTTGCTAATGATATGCTTTT
GTTGCTTTTATTTATAATTTATAAGATCTAGTGATAGTTGCTTTTATGTT
CTATAAATCTTATTAGTTACATGTATAGAATTTTAAATGAAAATAGAAAT
AGGTATATGGAGTAGAATTTGGAAGAGATTTATGTTCAACCCTAAATGGC
CATCGACAATCTTAAACTAAATTTTGGCTTAAATGATGGTTACGTTGCGT
TTATACCTCTCGCTGTGTGAAGATGCTTATTGTCTGAACTTATTAAAGTT
TACATTGTGTATGAAGATGCTATAGTCCTCGGGATGAAGTAAGAAAATTA
TATTATATTGTACTCTTGTGTATTGTATAAGAAATTTTATTGTCATACCA
AGATCTGATTTTCTGATTGTATTTGAAATTTGAGTAGCATACTTAACAGC
CCACTTGAAATTATAGGTTATAGCTTATTTAGTAGTTGTACTTTTATCAA
CAGGGGCATGACCTGTGGATTTTTATATTTCGTATATATGTCTTTTATAT
GTACTTAATTGGCGTGCTTTATTTATCTGGTTGAAGTCAAAAAGATCTCG
TCCTTCAAAGATCTGGTGTAAATCCTCTTTGCATTTTTTGTTTATACCTT
GTCTGGATGTCCAAAAACAGTTTCTTTGAGATAGATAGCCAAGATATGAA
ATGTTTTGTTATAACTGCAATTGAGAGAATAACCCTGGCGTCATATCTCC
ATCATCATTGTGTTTTAATGAGTGGGTGTGAGCAAATAGGAACTGTTTCA
ACATTTAAATCTTTCCTTAACTTCCTCCATGTTTGTGTTTACTGTCCTGA
CCTGTTTTAGTCCTTTGGATTATACCCTATTGAACTGGCTGGAAAATTAT
ATGCAGGCCCTTGATACGTTCAACACGGCTGTTGTCTCCCCAATATATTA
TGTTATGTTCACGTCATTGACAATTTTGGCAAGTGTGATCATGTTCAAGG
TAATGGGCACACTTTCTTCTAAAGCTGTATTTCCTCTTGCCCCCTTTTCT
TTCAAATACTAAGTAGGGCAATATAACAAAGATGTCTTGGTGAGTAATAT
TATTTTTGCTGTTCCTAAATAACCTTCACAGTATTTCGGCACACATAGTG
AAGCATAAAAGATAAAACTTAATACTAAATTATAGTTTATATCAGTGTTG
TAAAAAGCGGGAATCGGACTTAGTCGGTGAAGGCACCGTCTAGCGATTAA
TCGGATAATCGGGGATTAATCGGAGTGATTAATCGGATCATTAATCGTAA
TCAATTTAATATTGTTTTTAAAATTATATATATTAATATAATTATATATA
CTAGAAATTTATAGTCTTATAAAATCAAAAGATTAATGATTTTTTATAAG
ACAAAATATGTCTTTATATACATATACAAGTCTAGTAATCTCATGCATAA
ACTTGAATTTGATTGAATATGCGAAGGAAAAAATTGCAATTTTTGTAATT
AGAGTTTAGGGGTTAATATTGAAAGAGTGCAAGGTGATAAAAACAACTTT
TATTTGTCATTTACATGCCTTTTGTTTTATTAGAAATTAAATTTTAATTT
TAATTTTTTTTACCTTTTATTTTAATTTTTTTTAAATTTACCGATTNTAG
CGATTAATCGGATAATCGGGGATTAATCGGAGTGATTAATCGGATCATTA
ATCGTAATCAATTTAATATTGTTTTTAAAATTATATATATTAATATAATT
ATATATACTAGAAATTTATAGTCTTATAAAATCAAAAGATTAATGATTTT
TTATAAGACAAAATATGTCTTTATATACATATACAAGTCTAGTAATCTCA
TGCATAAACTTGAATTTGATTGAATATGCGAAGGAAAAAATTGCAATTTT
TGTAATTAGAGTTTAGGGGTTAATATTGAAAGAGTGCAAGGTGATAAAAA
CAACTTTTATTTGTCATTTACATGCCTTTTGTTTTATTAGAAATTAAATT
TTAATTTTAATTTTTTTTACCTTTTATTTTAATTTTTTTTAAATTTACCG
ATTTTTGACCGACTTTTTCCGATTAATCCCGTCTTTTGACCGATTAATCC
CGATTTTGAGAAAAAACGATTTTTTCACCGATTAACGCTTAATCGAGACG
GTGGCCGACCGAACAACGATTAATCGGCGATTAATCCCGATTAATCGCCG
ACTTTTAGAACACTGGTTTATATATGAAATAGGAATTCAAATTGTTTGAT
TTTTAATTTAATATTAAGTACAACTGTATATCTTTTACACTTAATGTACA
TACCAAAAGTCAAAGTGGTTATTATTTGAGAATGGAGGGATTAATTAACA
AGTTAGTCCGGTCTGCATATATATGTCGTGTGATTGAAAATAGATATAGG
AGTTTTTAGAATATGGTTGATTTGGAATTTTGCAAAAAAAAAAAAACATG
TTGGCATTGCTTGACAAGCACACCATNGAGGGAGGGGTTTGTGTTTGCAT
ATAAGAAAGCGGTGTTCTGCTATGATGCAGTCTGTAGCTGGATGGCTGAT
ACAGCAGAACTTCAAAAGCTGAGTCCGTATATAAAAGTTTGAGGGAGGGG
TTTGTGTTTGCATATAAGAAAGCGGTGTTCTGCTATGATGCAGTCTGTAG
CTGGATGGCTGATACAGCAGAACTTCAAAAGCTGAGTCAGTATATAAAAG
TTTGAGGGAGGGGTTTGTGTTTGCATATAAGAAAGCGGTGTTCTGCTATG
ATGCAGTCTGTAGCTGGATGGCTGATACAGCAGAACTTCAAAAGCTGAGT
CAGTATATAAAAGTTTGAGGGAAGGTCAATAGTTGTGAAAAGAAGTTGTT
TGACACCCACTAAAATTAGACCCAGATCAGGTTTTGCTACCCGTTGTGAC
CTGTCAGGCACAGCAGTTGAGAATCAACAAATGCAAAGACTTGCCTTTCC
ATAGTGGTGCGTGCATATTTTAGTGATCATATCTTTTGACTTTAGTTCAA
ACATAATAGAAGAGATACAAATATCATGATTTTAGGTTTGTAGCCCTCTT
GAAACTGGTTCTGTGGACCAAAGCGTATCATATAGACATGACCTTATAGT
GATGCCATATCTAATTTATTGTGGTTTTTATTGTAATCTATTATATACCA
CATATCAGTACTAATAAATGCATGTTCTTAGTTTTTATTAAAAAAAAATT
AAAATTACAAATTATTGCTGAGATTTTTCTCTTTTTGAGCAGGACTGGGA
TAGGCAGAGTCCAACTCAAATTGTCACGGAAATGTGTGGGTTTGTGACGA
TCCTTTCTGGAACCTTTCTACTTCACAAAACGAAAGACATGGTTGATGGT
ATGGTTCTGTTAATTTCTTGTCAAGAGGACTAGAAACAGCCAGTCCTCAC
AATCACAAGGGCCTGGTAATTCGTGGCTTTTATTAATAATTTCTCTCAAA
ATGAAATGCAGGTCCTGGAGTTCTGCCAGTGCGCCTTCCAAAGCACATGG
ACGAGGAGGACAATTTCGGTCAAGAAGGAATACCTCTGAGACGGCAACAA
ACATAACGATAAACCCTGATGTGCTCTTGTATCCAGTGACCACGATCATA
TCGGCAAAAGTACACCCAGATATCGTAGTTCTATACTTGTGCATCAAGCA
TTAAACAAACCCACCAAATCTTTTTATATTTTCTGGGATTTTTGTTTCCA
TTATCGATTTATACTTTTCCTGGAAGGCCAGGAACATACTCACATAGTCA
CATGAGATGGTGAGTTTTTCATGTAATGAAATTCTTTGCGCCATCCAAGG
GAAATATTATTACAAATATAATTCCATAA