| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017396861.1, is a part of gene, LOC108222899. |
| The genetic_marker, MK004984 K2428, is located in gene, LOC108222899. |
| The mRNA, XM_017396862.1, is a part of gene, LOC108222899. |
| 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_017396862.1 | XM_017396862.1 | mRNA | DCARv2_Chr5:38804343..38811401 |
| XM_017396861.1 | XM_017396861.1 | mRNA | DCARv2_Chr5:38804343..38811401 |
GGGTTTTGTCATTCTCTTCGTTGCGCCTCTTTCCTCTCTATTCACAGAGG
AGAGAAAGTAACACAAAAACCCTCTTTCTCTCTCCCCATCTCTCTCCCAA
TCTCTCTGAATCTCTCCCTACATATTTATCTCTAGATATCTAGGTATCCA
GATTTGGCGCATCTAAATCGCCGACTCTGAGCTACTTTATTATCTTTCCT
TCGTTTTCGATCGATTAAAAAAGTAATCACTTAATAGGTATGCAGCAAGC
TGATCCGACGGTGTTGAGTTTGAGACCAGGTGGCGGTAATCGAGGTGGCA
AAACTATCGGCTCTCGCTTCGATTCTTCGTCTTCCGTTTTTGCATCTGCT
GATCTCCCTGTTTTTCGCCCCCATGGCGGCTCTTTTCCCATCAAGGTTGA
ACCTTTTCTATCTCTCTACGCGGATCTAGGTTTATGTGCAATCAATTTCT
TGTTTTGATTATTCGATTCGGTGATTTGGAGGCTGTTTAGCTGTTTTAAT
TGTTCGAATTGTAATACAGCTCCTAATTGTATTGGATTTCTTGTAATTCA
ATTTGGTGCTAATTGAAATATTTTAGCTTTTAATTATCACGTGTTAGTAC
TGATATGTTTTGATGTGGAAAGACTGTAAAATCAAATTTGGTATTGTTTA
TGAGCCTTTAAATTTGTTATTTCTGCTTCCTTTTGAACTGATTTATACAT
TAAAAGAATGGACCAAACTTGAAAGCAGTGTGGAAATTTAGGTGAGGGCA
TGTAAGAGAAATTGCCATTACGAACTCACATACAAAACAATACTATTAAG
TTTGAGAGTTATATGCTGTCTAAAGGTGGAACTTGAGGTTCTAGGGCAGT
AGGGCTTGACTTCCCACGAGAAACCTAATAGAGTATGAAAATATCTTGGT
GCTGGTGTAAAATAGAGGAATTCAAATTTTTTGAAGTGTCCTGATTCTTT
GCTGGTGCCAGAATGTGGTTCCTGTTACATACTTACATGTAGGTAAAATT
GGGCATGCAGGGAGCCAGTTCATGCCTAACAGAAAGTAGAGAGATTATAT
TATTCAGTTTTTGATGTTTCGTATATTAAAGTAGAGAAAGATGCATTTGA
CACATTTTTCTTAATTGAACATTGGTGTAAACTGGGCACTAATCTTTTTT
TTTTTTTCTCTTATTACAAAATTGATTATAGACTGGTGATTCACGATTTG
AAGGCCGGGAGAGAATTCGCTTCACAAGGGACCAGCTATTACAACTGAGG
GAGGTAATATCACTCAATAGTTAAACTATCCTGCATCTGTTGCTAATTTT
TGGTACAAGTCATTATTTCATGTATAGAGATATTTCTAATTTGGGGATAA
ACTTCTGTCCTTGTATTGAGTTTTAACTCTTTAATGCAATTAGACTGTAT
ATATGTTTCACAGTTTTCTATAGGATACAAATTTTTGCAAGCCTGTGAAT
ATATTTTTAAGTTACTTATTGCCTCAGCGTTTGCATCCTCGCTCAATGCA
GTTTATATAGCCTCTTCTCATTTTGTATTTGACTGGTTCAAAATGGAACG
ATATCCCTTTGTCTTTGCCTCTTTGGCTGTAGGACTTTTCTCCTCTTCGT
AGTATTTAGGATACTTGTCGAAAAATCTGATCCAAATTGAACAATCCGAT
CCAAATATTTACTCTAATCCAGATGTATGTGGTTTATATGACAATCAATC
TTATGTGCAACGAAAACCAAGGACTGCTGATACTTGTGAACTTATTGTCG
GAGTGTTGTTTTCGTACTGCAGGCTGTAAACATTACTGACGAGATTCTGA
AGGTTAAACAAGTAGTTGAAGCAGAATTTTTTATTGAAGCTCAGAACTGG
GGTCATGGAGAAAGTAATGTAAGTCTCTTGCCATTGTTTAGATTCTCAAT
TGGCTAAAGATTATCCCAAGCTTTCCATTTTAATAGTAGCCAACATTATG
TATATTTTTTCTAAAATATGAAGCTATTATGATCTTTACAGCCACCAGTT
CCACAAAGTCAGCCTCAGAGTCGTTATTCTGAGCCAGACAGTCGCGATTG
GCGTGGTCGATCTGCGCAAGTCCCCTCATCTGTGGAGGAGAGGTCCTGGA
TCGGCGACAGAGAATCTGGCGGCCGACTTGACTCGAGACAGCAGGACAGT
AATCAATACAACCGTCAAGACCAGCTGAACTCACAGTTTGGTAGGGGACA
GTACTCTTCTAATCAAGGGGTGAGTTGTGCGTATTACAGATCTGTATTAT
CCACCTACTTTATCTACCCATACTACCAAATCATGAAACAGTTATTGTGA
TGCATGGTTAATAAGAAGTATAACTTTGTATTTTCTAGGCCAAATGAAAC
AGTTACTACTGTTATTAAATCCAAACGTACCTGAATGGTTCCTTAAATTT
TGGACCGAATTCGAAATTTATACTTATGCAGTTCATATTATTCAAAATTT
TAGATCCAACAGATGAATCTTAAATTGGCTTACACTCAACAATATATTAT
AGTAGGATACTCTTGATAAGATCTAGTTATTTTCATGTATTGAGCATGTA
ACTTCTTCCTTTAAAAAATTTTCTGTGCTCCTTAAAGTTGTGGTGCTAGG
ACTAGATTTTGATTTATTATTGGGTGTGATTCTGAAAAAGGTCAATGCTT
AAGGGAATTTTTGTAATGAATTTTGATTTTGGCTGGAGCTATCATCGCTC
ATTCCTCTATATAGAAGTTTGTTTCTGCACAGGGGATAAACTTAATAAAT
AATTTTTCCTTTTGTTTTATGTTGAATTGATTGTTGAGGTTTTCATGAGA
TCTGTTGTTATTAAACCTTTATCAAGTCCGGGGATTCTGGCTGGTGGAAA
ATGCAATGCAAAGTGAGTTGGTACTTACTATGCGCCCGCACAATCGAGAA
AAGAATTGGGGATTTTATGGTGTGGTTCAATATGTAGGTGGTGATTGATT
GTCATTGGAATTGGAGGTAAGGCCTGAAATTCTGCCAGGGAGTTGCCAGA
GTTTGATGGCTTTGGTGGTAGAGTAATAGATTAGTAAAATGCAAGTCAGA
AAAAACAAAAAAAAAATAAAAAATTCTTTGGGCGCTAGCAATGGTGGATA
CAAGCACATGCCGTCAAAAAAAAAATAAAAAATCACATCAGTGCCTTTAA
TGTTAGAGATAGTCATTACTCATTCCTAGTTCCTGCTGAATTTTAAGGTT
TAAAATGTGGTTTTGTCAAAATGCAATCCCACTGTGGCTGGTGAAAGGCT
TCCAACACACATCTAATCTAATCTATGTTTAAAAAAGAGTTGTCCTTAAA
AGTTGACATTCATGGGCTGATATCCTAGCATCTCATATATATTAAATTTA
CTAACATAGTTTGCCTTTAAGAAGTATTTTCTTTTGCTTTATGTTCATGA
ATAAATCTGTTTTAAGTTTGCATTAGTTTTAAAGAAGATCGATTCTCTTA
CTAATAACTCTGTTGCATTTTTTGTTATTATTTATCAGGGAGCTCCTCCT
ACTCTTGTAAAAGCTGAGGTTCCATGGTCGGTTCAAAGGGGCAATTTGTC
TGAGAAGGACCGAGTCCTGAAAACTGTAAAAGGGTAATCTACTCTGGCAA
TGCACTTTTTAATATTTCACGTGGTTGCTGGCTTCATATAGGTTTATTCA
TCCCCTTGCTACACTGTGAATCTTAATTTGCTAGACTTGTTCTGCTTATC
ACGTGTTTAATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNCTCGCTCCCTCTCTCTAAATCCCCTATATTAAAAGATTTAAACCC
CTCCTTCCTCTTCTCCGGTTCTATCATCTATGTAAGTTAACATCCTATGT
TTGGCCTTTTCAATTGCCAAGACTTTCTGTGCTGCTTCTCCTGTTGTAAT
TTATAATTTTGTAGATTGTTCTCTTTCATTTATTACTTTCCACAAATTCT
CAATTCTTTCCTACAAGCTAAAGGCTTCAATTTGAGCTAAAAGTGGAAAC
AGTTTAGCATATATATGACTACTAAAATACATCCCCGACTTTGGGAGCTC
TCTCTATGTGAACAATAAGACACTGTTCATCAGTTGCTTTGCATTTTTGC
TGATGCTTGCAGGATTTTGAACAAGCTGACCCCGGAGAAGTTTGATATTC
TAAAGGGTCAACTGATTGATTCTGGAATCACAAGTGCTGATATTCTGAAG
GTTAGCTTTAGCTCCGCCAATTTCTGTTGATGATCTCTTTTTCTTTTGTT
ACGCAGGTTATATTGTACTATTATGAAAGCTTCTAATATGGAGTCTTCTG
GCAATGCAGGGAGTCATATCTTTGATTTTTGACAAGGCAGTGTTGGAACC
AACCTTTTGCCCAATGTATGCAGAGTTGTGCTCTGATCTCAATGAAAAAC
TACCCCCATTTCCATCTGATGAACCTGGTGGCAGAGAGATAACGTTCAAG
CGAGTTCTGTTGAATAATTGCCAAGAGGCCTTCGAAGGCGCTGACAAACT
TAGGGCAGAACTAAGGGAAATGACTGCTCCAGAGCAGGAGTTGGAACGTA
GAGATAAAGAGAGAATGATCAAGCTGCGGACTCTTGGAAACATCCGTTTG
ATTGGAGAACTTTTGAAGCAAAAGATGGTCCCTGAAAAAATTGTTCACCA
CATTGTTCAGGTTCCTTCATCTTACCCTAATAACTATTAAAATACTCAAC
TGTTTAAGATATGCATTGTGTCTGAACTCTGAGGTGAGGTCTTCATGTTT
CTTGTTTCTGTGTAATAGGAGCTTTTAGGTGCTGACAATAAGATTTGTCC
GGAGGAGGAAAATGTTGAGGCCATATGTCATTTCTTCAACACTATTGGTA
AACAACTTGATGAGAGCCCAAAATCTAGACGTATTAATGATGTTTACTTT
CTCCGATTGAAGGACCTCTCAACGAACCCACAGCTTGCCCCACGAATGAG
ATTTATGGTTCGCGATATTATTGACCTTCGTTCAAATAACTGGGTTCCCA
GGCGAGAAGAGGTGAATATTGACCTTTTGTCCATTACATGCTGTCTTATT
ATTTGGAATTCATTTCTTAATGTTTCGTCTTTTCAATATAGGTTAAAGCG
AAGACTATAACAGAGATTCATAACGAAGCAGAGAAGACTATGAAGTTGCG
CCCAGGTTCTACTGCAAGTATAAGAAATAGTCGTGGCATGCCTTCTGCAG
CTCAGGGAGGCATGACTGCTGGCGGATTTCCTATCCATAGGCCTGGTACT
GGAGGTATGATGCCTGGAATGCCAGGGGCTAGAAAAATGCCGGGTATGCC
TGGAATTGATAATGACAACTGGGAGGTTACTAGATCTCGAACAATGCCAA
GGAATGATTCTAGTCAGCCAGTTGGACGGGTTCAACCACCATTTATTGGC
AAGTCAGCTGTGTCAAACCCAAGACTTCTACCTCAAGGTAGTGGTGGACT
TATTAGTGGTCGGTCTAGTGCCTTGTTGCAAGGCAGTAGTTCAACACAAG
TTCGCCCTAACTATGGTATTGGTTTTGAATCCCCACGTCAAGACCCTTCC
CCTGTCAGACAGATTCCAACTGTTTCTATGCCACCAGTTGCTGCCAAACC
CACAACTTCTTCTGTAAGATTGAACCCGGAAGAGCTTAGGAGAAAAACAA
TTTCACTTCTTGAGGAGTACTTTAGTGTTCGTATACTGGATGAAGCCTTG
CAATGTGTGGAGGAACTCAAGTCACCTGGTTACCATGCTGAGTTGGTCAA
GGAGGCCATTTCCCTTGCACTGGAGAAAATCCCGCCATGTGTAGAACCTG
TTGCCAAGCTCCTAGAGTACTTGTCTGTAAAAAAGGTGCTTACAGCAATT
GACATACAGGGTGGATGTCTTCTCTATGGTTCCAACCTGGATGATATTGG
CATAGATTTGCCAAAAGCACCAAACAATTTTGGCGAGATTATGGGTAAAT
TAATTTTAGCTGGGCAACTGGACTTCAAGGTGGTCGAGGAGGTTTTAAAG
AAGATGGAGGATAACATGTTCCAGAAACATGTACTTTCTGCTGCACTGGG
GACTGTCACTTCAAGTCCTTCGGGGCAAGCGTTTTTAGATTCACAGGCAG
CTTCTATTGAGGCCTGCAAGAGCCTTTTCTAGAAACTTTTAGCCCCTCCC
TTGTACAAGTATGTAACCTCATATTGGAACATTTTCATTTCTCTTCACAA
TTTCTCACCTTTTACACGAAGCTGGGAAACCACATTACTTATCCCATGAG
TTTGATCTGTGAAGAGCAGGTGTTTTTTTGATAATTTTTCAAGGTCGTGC
TGGAGTGTGTTATTTGGGAAATATAGGCAGGCGCATAATGCCATGGATTT
TGGTCTCGGGCTGATCACATGCCATATGATCGAGATTGATGGCTCTGTAT
GGAGTTCCAGTCTTGTATTTGATTAGCTTGTTAGTTACTCTATATGCTTG
TGACACTAGCAATTTAGTTTTTTCAGTCTGAACTAAGTTCATAAATGCGA
CTGATGTTGCATGCAAATTTTAAAGTGCTTGTTATACTATTTTGACTGAT
GATAATGTTGCATCAATTTTAAATGTGATGTCATATGTGATAGTAGTTTC
TTGAATTA