| NCBI Gene |  |
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| Relationships |
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| The mRNA, XM_017371079.1, is a part of gene, LOC108202606. |
| The genetic_marker, MK004905 K2349, is located in gene, LOC108202606. |
| The mRNA, XM_017371078.1, is a part of gene, LOC108202606. |
| 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_017371078.1 | XM_017371078.1 | mRNA | DCARv2_Chr9:14563618..14570562 |
| XM_017371079.1 | XM_017371079.1 | mRNA | DCARv2_Chr9:14563618..14570288 |
CTCGTCGGACACATCACTCGGGAGTGCGCGCACACCCGCGCGGCTCAAAA
TTAATATATGCTCCCCAACTCCAAGTCCTCCCCATATGCTCGGTGGATAT
TAGCAGTGGACACCATAACTAAAACTTTTTTTACCTTTTCTGCACATGCC
ACAAGGAGAAGTAGAAGACGTCAAGCAGCAGCATGCAAGTTGAATCCATG
GTCCATTCTTTTAACCTTTTATAGTCACCGCTACTCTCTTCTTGCTGTTA
ATTAAAAACAAATAATTAAATAATTGCAAGTTGTGCAATATATTATTCCA
TTGGAATCACATCCTGCAAATAGCCCACATCCTTATCATTTCCATCATTT
TATTAATATTACTGATAATATCTTTATTCAGCGGTCACACAACACAAGAC
AACAAGAGTGAGTTGTGTTCGGAGAATATCGACCATGTCTGAACCACAAG
CAGTTGAAGATGAAGACAAGTCAAAGAATTCGACGAGGAAGCCTGGGAAT
TCTGCTAGTTATCCAGTTGGGTTAATAGACAGAGAGTCTTTGATGATGAT
GGATGTTGACTTGGATCTTGATGCTTCTTGGATCTTCGATCAAATTTCGA
CTGACCCGGCTTCCCCTTTTCTTCTCTCCGACCAGCCTTTCTCTCCTCTC
TGGCCTTTTTCTGATGATGCTTCTGCTCTCTCTGCTCCGCTTACTGGGGT
TTCTCTTCCTCTTTTACCCTCATGTAAGCTCCTTCTTTTCATCTTCTCTG
TTTCTCATTCATTTCTACACTTATTTTGAGGATCTATTAATTAAGCATTT
GGTCATTACTATGTGTATATTGAATTGGGATGCTTGTTTGAGTTGTTTCC
ATATATGTCCCCCGCATGTATACCAAGAGACCAGTTAACCAACACACAGC
CTTCTGGCTGTTGGATCAGCGGCCAGGATTATAACAAAAGTTTGATATAT
ACAGTGCTTTTTAACCGGTGGACAGGGTTAAACTTCCCCGTCCAGCGGTT
AAAAAGTGCTGGACAGGTCTCGTCTAAGCGCTGGCCGGAGGTTGTAATCC
TGATAGCTGGATATTCATCCAACGGCCAGAAAATGAGTGTTGACGACGAG
AAAAGGAGTGTTGGTTAAGGGTCCCTGACATACATACATATGTATGTCAG
GGACCAGGACCCATGTATTTATATATGGAATTCACCGGATTTTAAATTGG
GTAGGACTCTATTTTTATTCCTTATGCTGACTGCGAAGCTTGCCTGCACT
ATGAATTTTCATTTTCAATTTCTTTTGTATCATGTGTAGGTGATCCACAA
TTGACTTATGACAATAAGCAATGTTCGAGTAATGATAAAAAGAGTCTTCC
TTCACCACTGTTGGGTTTAGTTCCATTAGATTATTCAGACGGGTCTTGTT
TGATTAAGGAGAGGATGACGCAAGCTCTTCGCTACTTCAAAGAATCGACT
GAACAACATGTTCTAGCACAGATTTGGGCACCTGTGAAGAAGGGAGATCG
ATATGTACTCACAACTTCAGGCCAGCCATTTGTTCTTGGCCTCAATAGTA
GTGGACTGCATCAGTATAGAATGGCATCAGTGATGTACATGTTTTCTGTT
GATGGGGAGAGCAACCTCCTTGGTCTTCCTGGTCGTGTCTTTCAACAGAA
ACTTCCTGAATGGACACCTAATGTGCAGTATTACTCAAGTAAGGAATATC
CTCGTCTTGACTATGCTTTGCATTACAATGTTCAAGGAACGTTAGCTCTT
CCAGTGTTTGAGCCTTCTGGTGGGGCCTGTCTTGGTGTACTTGAGCTCAT
AATGACTTCGCAGAAAATCAATTATGCACCTGAGGTTGATAAAGTTTGCA
AAGCACTTGAGGTGGGTAGCTTCTACCTTCATCTTCTTCATATGCCTATC
TATACTTGGACTTTGCTATTAATTCTAGCATTCTTTGTTGTTAGGTAATT
TTAACCCATAGCTGACTCATATAATCATTATGTGATTTGTTTGCTGCTAC
AGAATTCTAGGCGGCGGGGAGGGGGGGGGGGGGCGATTTTAATATAGTTT
TGCCAAATATTAAAACTATATGAGTTATGCATGAGTTTCAAGAGTACATT
TATACTTAAACCAAATAGGCAAATAAAAAATTTCATTATACTTGATCATT
TACATAATTTTTATTTTTTACTTGATAACATAACTGATGCATTATAAGGT
AGTTTGATGGTTAAGTAATCAACTAATTACAAGATTAATTATTTAACAAG
AATCCCCAACAATTGGGTGCGTAGTGCTGCGAGTGAAGACTCCTGGCTTA
TAGATGAAGAGTAGTATGAGAAGTATCTAATTGTTTGCTGTTAAATTTAA
AAGATTTTGATACAGCATCAATGTTGCTAATAAGCCTGTTTTGCATCACT
TACAGTTAAAATGATTTTTTTTTAAAGTTCGCAGAGGAAGTTATTTATGT
CACAGGCTTGTTACTTTAACCTAGATACAAATATACGAAACTGTTTATAT
GCAAGGGTTTTGTTAAAAAAAATGATAGATTTGTTGTAAGCTCATAATCC
AACCACCTTCAGGTTTTAGATGGACCGGTTACTTAACATGGTATTGGACT
CTTGGTTGTGAGTGGTGGGCTATGTTTAAGATACTTCTCAATTAGAGATC
GATGAAACCAAATATAAAACCATTATAACTATATGTTATGCATGTATTTC
AAGAGTACGTTCATACTTAAACTAAATAGTCAAATATAAAAAGTTCATTA
TACTTAATCATTTGCATAACATTTACTTGATAAAACAACTGATGCATTAT
AAGACTTCAATGGTTAAGTAATCAACTAATCACAGGATTAATTATTCAAC
AAGAATACCCAAAAATTGAGTACGCAGGTCTGCGAGCGAGTGAAGACTCC
TAGCGTACTAGATAAAGAATAGTGTGAGAAGTATCTAACTGTTTTCTGTT
AAACTTAAAAGATTTTATACAGCGTTAGTGTTGCTAATAAGCCAGTTATG
CATCACTTAAAGTTTAAATGGTATTTTCTCAAGTGCGGCTGAGAAAATTG
TTTATGTCACAGGCTTGTTACTTTAGCCTAGATACAAACATACAAAACTG
TTTATATGCAAGGGTTTTGTTATAAAAAAAAATATGATTGTTGTAAGCTC
AAAATTTAACCACTTTAAGGTTTTAGATGGACCAGTTACTTAAACATGGT
TTTAGACTTTTGGTTGTGAGGGGTGGGCTATGTTTACAGGATACTTCTCA
ATTTGAGATCGGTGATGATACTACCCATTGCTTCTTGTGTTATTTATATT
TCTTCTTCATGAATATTTGTAACTAATCATAAATTAAAGAGTAAATGCAC
TGTGTATACTCCCACTTACTTAAGACACCACTTGCAATACTACAATTCAT
AATGAAAAATATTAATGTTTATATTTAAATACACTTTCTTGCATTCCATT
AATTTGAGTTAACTTTTTAGTAAAGTTTAGGAAGTGAAGTGTACTTTATG
TATTCATTCTTTACATAAAGTGCGCTTTGTGTACACGGATCTTATTATAT
ATTCGAACTGGAATACTGCAAGTGGTGTTTTTCAATAAAGTTCAAGTGCA
CAAAGTGCATTTTCTCCCGAAATTACTAACGGAGCTGACCGAAGTTTATG
GAATGCAACAAAGTGTGATGAACTGGAAACATTGATATATCAAGTGCTCA
TTTTTGAATTACAGTATTAAAGAGGTCTTTTGAGCAAAATACGAGGACAC
AAAGTTTACTATACTCTAAATCAAGATATCGAAATAATTACATAATTACA
GATATTGATCCTCAAGTATAATACAGAATTACAGAAGCAAAAAAGCAAGG
ATGTTTATATGCATCTCTCATGTGACTCATTTTATTGACAACATTATAGA
GATTTTCATTTTATACTTGAATGAAGTAAAGCGTGTTCAGATCTCCAATT
CTTGACCATTCAAACTTTGCTAACTCAAGCGCAATTAGTGTGGTCCCCTG
ATCTTGAAAACAGGAATATGTAGACTTCATTATAAATTTAATATTAGAAG
CTATTAGAACTCGTCAGTTACATAATTATAGTTTTTTTGCAGGCCGTAAA
TTTGAAAAGTTCAGACATCTTGGATCACTCAAGCATACAGGCAAGCAAAG
TACAAAACTGTTATATATGTGTTGATATCTCTATGCCATATGTTCATTTT
GGTATTAGTGTATACATATACTTTTATCTGATCTTAGAATCATTCACTTG
GCATGTTCATAAACCAGATTTGCAATAAAGGCCGTCAAAATGCACTAGCT
GAGATCTTGGAAGTATTGACTTTGGTATGTGAAACCCACAAATTACCTCT
GGCTCAGACTTGGGTCCCTTGCAGGCATCGGAGTGTTCTAGCTTATGGTG
GTGGTTTAAAAAAGAGCTGCAGTAGCTTTGATGGAAGTTGCATGGGTCAA
GTATGCATGTCTACAACTGATGTGGCATACTATGTTGTAGACTATCACAT
GTGGGGCTTCCGTGAGGCTTGTGCTGAACATCACTTGCTGAAGGGGCAAG
GTGTTGCAGGGAGATCATTCTCTTCCCAGAGTTCCTGCTTCTGTGAAGAT
ATTACCAAGTTCTCCAAAACTGAGTACCCCTTGGTACATTATGCTCGTAT
GTTTGGACTAAGTAGCTCTTTTGCTATATGCTTACAGAGTAGTCATACAG
GAAATGATAATTACATTTTGGAGTTTTTTATGCCACCAAACACATTGGAG
GGTAATAAGCATTACACCATGTTGGATACGATGCTGGCAACTATGAAGAA
GCAATTTCGAAGTCTTAAGGTTGCTTCTGGGAAAGAACTTGACGAGGAGG
GGAGATCTGTGGAAGTTATTGAAGCATCATCAGATGGGGATCCTGATTCA
AGAATTATATCTGTTCAAAAATTAGAATCTAATGTAATTCCATGTACTGT
AACAAGGGATGGAGAAAACGGACATGTTGATTTGTCAGGAAAGCCGATAA
TACAGAAGTCTGATGCAGTAACTAATATAGCTAATGTTGCCGGATCTGGG
GAAATTTCAAATGGTGCTCCTTTATCAGAAAATAAAGATGCAAAAAAGAA
ATCAGAGAGAAAACGTGGAAAGGCTGAGAAATCCATCAGCTTAGAGGTAC
TGCAGCAATATTTTGCTGGCAGCCTAAAGGATGCTGCAAAAAGTCTTGGT
GGTATGCTCATAATTCCTTGACTTGTAAATTTTGCTGCCGATTCTTGTTA
TGAGCATTGTAATTATGATGATGTAGAATTTTCATAAAACCTATATTTTT
GTGATTACTTCAACTTGTGAGATTTTCTATTGATGTTCTCTTTTACGTTT
ACAGTTTGCCCTACAACTATGAAGCGCATATGTAGGCAACATGGGATATC
TAGGTGGCCGTCTCGCAAAATCAATAAAGTTAATCGTTCCTTGTCCAAGC
TGAAGCGGGTAATTGAATCTGTGCAAGGTGCAGAAGGTACATTTACTTTA
ACTTCGTTGGCTAAAAGTTCACTTCCGGCTGGGGTGGGTTCGGTTTCGTG
GCCTGTCAGTTTGAATGGATCTAGTCCACAGAATTCACCAGTTTCTATAC
CATCTGAGGTTAGAGCAGAAATTAATAATGATGGACAAGCTGAAAATATA
GACCTTCCTTCTGGAGGAAGGTTACAATGTGAGGATGAATACATTCACTT
GCAAGGGGGATATATACCGGAGTTGGGTGAAGGTTCAAATCGGTCGAAAA
CAGGCAGTGGATCAAGAGAACACAGCACTGGCACTCCTACCTCTCATGCT
TCAGCCCAAGGTAGCCCCTTTAATGTGAATAATTCCTCGCAAAATGATCA
AGTAGTTTCTCTTTTGGGTGAGGATTGCTTGAAAGTAGGGGCCTCGTTTG
AAATGGCTCGTCAACCAATTAAAGAGGCAAATCTACCTGTTGCATTTCCC
GTTCCTAATGTAGTTGTAGGAGCAGAAACTGAAGAATTATTTGGGGGAAT
GCTAATCGAAGATGCAGGAAGTTCACATGATTTAACAAATCTCTGTCAAA
CAGGAGGGACTTTTCCTGATGAAAGGATACCAGAGTCCAGTTGGGCAAAT
CAGCCTCCTAGTGATGAGTTTCTCAAGGGATCGGTTCCGCACCTTGAGGA
AAAGCCACAAATTCCATCTAGGACCGAAGTGAAGACTGTGACAGTAAAGG
CAACATACAAAGAAGATATAATTAGGTTCAGGTTGCCATTAAGTTCTGGC
ATTATAAAGTTGGAGGAGGAAGTGTCAAAGAGGGTAAAATTAGAGGTAGG
TACGTTTGATCTTAAGTATCTAGATGATGATCAAGAATGGGTTTTGATTG
CGTGTGATGCAGACCTGCAAGAGTGTGTTGAAATATCAAGGTCATCAGGG
CGAAATATAATCAGATTGTTGGTTCAAGACATAATGGCGAATCTTGGGAG
CTCCTGTGAGAGCTCAGGGTGACTAGGAGGAAGATTAGGTTGTAAATACA
ACACAATCCATTATAACACTCCTGCAGTGTTATCGTTTAACATGGGCACT
GGGCAGGATGCAATACAAGTTTTAGAATTTGGTGGAAAAGTTGCCAATGT
TGTAAGACATTTACAGCCAGGTATCTTGTGGATGTATCGAGGCTTGCAAA
GTTTGATTGCTTAAGGTCTACAGGGCTGATTGTTGCCACCATAATACAGT
AGTGACAGGCCATTATTCTTGATGATGCATACAGCATATATGTAAAAATT
ATTATTATCCTTGTGCCCTAGTTGTGGTAGCACTTGGGATTTTGGAAGCA
TCAAAGTGGCTTGTAATGGTATCGGAGTAGATGTTATTGTTTGCTAGCTG
GAAAATGACGTCCAATTGCTACAACCTTTGTGTCTTGTAGATGTTTAGAC
AATACCAAGTGAAAATAATGTATTACGTTTAAGTTTAACCAGTT