| NCBI Gene |  |
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| Relationships |
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| The mRNA, XM_017374994.1, is a part of gene, LOC108205174. |
| The genetic_marker, MK003128 K0572, is located in gene, LOC108205174. |
| The mRNA, XM_017374995.1, is a part of gene, LOC108205174. |
| 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_017374994.1 | XM_017374994.1 | mRNA | DCARv2_Chr1:42702275..42709562 |
| XM_017374995.1 | XM_017374995.1 | mRNA | DCARv2_Chr1:42702558..42709562 |
CATCCGAACCCAAACCCCATCGGAAATCGATATTTGTCATTAGAAAAGGT
ACCGTAACTTACAGAGAATTTAAAAATGCAGATATCAGGAAAAATGAAGC
ACGTACTTGTGCTAAAATGCACCAGCCTATACAGTAGTGCTTTGGATGCT
TCTTCATGCCATGGAGCATCGATTTTCGAGCCATAAATCAAACTCTTGAA
ACAACAGCAGCCCATCTCTGCATTTCTCTCTCTCATGCCCATTGATGTCT
CCACTTTTCAGACCACCAAGCCTCTGGTATCATTTGTATTTTTCCATCTT
TTCTTGAATATTTTCTGCTTCTTGTTTACCTTCTAGTAGTTTATTATTCA
TGTTCTTCAAATTCCCTGTGATTTTTATTTTTATTGCTCTGCACAACTTA
AATACAAAGTTTAAAGCTTGTGCACCAGTGATCTGTCTCTGACTGCCCTT
TGCCATTTCATATGTGTGTGTATCTGTGTGTGTATTTTAAGTTTTTTAGT
GTCAGAGCAAGACTTTGTGACCAGTTTAAAGGGAACATGAGATGTTTGAG
GAAGACCCAGTAAGCCCCTTTTTATATTTACCACACAAGTCATTAAATTT
TTGTTTTTTTAATGAAAAAAATTGATTTTGTGCTGAAATATGGAGATTAA
GAAGTGGGGTTCTTGTTTGGTATTGATTTTGTGAGCTTAATGGTAGGAGT
GTGAAGTGAGCTTGAACAGTTAGGGTTTTGTTCTTGGGGGGTCCAATTTT
TTTTTTTTTTTTTTTAAATCTTAGTTTCTTGATTGATAGAAATGATGAAA
GGACTAAAGGGTTGTGATAGATTATGTGCTCTAAGTTTGGGACACTTGTT
TATTCATGTTTGTGTTCGGTCGCAGCTCTGAAGAATGCAGGTCTGCAGTG
CATGCTTCTGAGCAAAACTAAAATCAGGGTTTCAGGAATTTGCAGGTATT
GTCATGTATTCTTCACATTGAGTGTAATTTTGAAATGTCATTGAATTTAA
AAGAATTTTTTAAGTATATGATAATATAATACTTTCATAAAATTTGTTTA
GCTACCTTATTGGAGTTTTATATTCTGCAGATTTAAAAATTGGAGTCTCT
GAGGGTGCTATATTTTGTTTTGCAAGTTCTGAACTAGTGAAGTAGACTAT
ATAGGTGGGTGCGGTTTAAACTTTACTCTTCTAGCAAGTTCTACTAAATT
TACATATACGGGGTATACAGAAGCTGTAGACCAGAAAAAAAACATACAGT
TTTCATTAGTGTAAAGTAATAGATGGGTTGTGCTGCATCGCGTATTGATA
AAGATGAAAGGGTTAGAATATGCAAGGAGAGGAAGAGATTAATGAAGCAG
GTGGTAAGATTTAGAGGAGTATTTGCTGAGGCCCAGTTAGAGTATTTGAC
AGCACTGAAAAATACTGGTGCAACCCTTCGCCAGTTCACAGAATCCGATT
CACTGGAACTCGATGATAACCCATTTGGGGCTACATCCCCACCTTCACCT
CCTCCTCCATTGCCTCCCTCACCTCCACCTCCACCTACTTTTAGTCCTGA
TCCAAGGAAGGTTAATAATAACCACAAGTTGGATGCTTCCCAAGAAGAAA
GTATAGAATTCGATGAAGATAATAGCTGCACACCTCCTCCACCTCCGCTT
CCAAGTTCTTCGTGGGAGTTCTGGGATCCGTTTGGTAATTCTGCTGCGCA
TTATAAGGAGAAAAGTGAAACAGTTGATCAGATTGAAGAGGAATGTTGGG
CCGAGGCCAAGGAGAATAGTGATATTGTGGATCAGGTTGAAGAGGAAAAC
TGGGCTGAGGCCAATACAGAATTTGAAGAGGAAAATTTGGAAGAGGAAGC
TGGAAGTACTGATCTTGTGAATCTTCTTTCCGAGAAGCCACATCGGAGTG
AATTTTTTGATGATAATTCATCTGTGATGAGCTGGCATACTAAAGACACC
TCAGATATGGCCATGGTGGTTTCGATGAGTAAGAGAACCTTGGCAAATAT
TGTCAGGGAGCTAGATGATTGCTTTCTAAAAGCGTCTTCTGGTGGGAAAA
ATATAGGCGTTCTTATGGACATTACGGTGGTGGACTCTGTTCTTTGGCAG
AAGAATAAGGAAAATAAGAGTAAGTACATGATTCTGTTATCAATATGAAT
GTTTCTTTGATGTTGTTAACATGAGTTCATCAATCAAACATGAAGTATTT
TTCTCATCGAAGTATATGAAAACACTCTCACCAATACACTGGTCTTCCAT
TTTATAATATATTGCTGCAGTTCATATCTGTATCCTATTATTATGATGCT
AGGATAGGCTACAGTTTGTCTCGTATCATGGTATGGTGGGTCTATTACAA
AAGATCAGCCAAGTGCCCCCTATTTTAGATATTTGATTTGAGGACGACTG
GACGAGTAATGCAAAACCGACATATATTACAATTTGCGTGTTTGGTTTCT
GAAAGTAGCACATTACCTTTGTCAAGGATTTTTGTATTAGTATTCTGTTG
ACATTTTTTAAAAGTTGAACATCTTTTCATAGATACTGATGTTTATAATC
CTAAGAAACAACTTGGAATCCTGAAAGGCCACGATCATGATATTGTATGT
ACATCCTAAAGCTTTTCCTTTCGGTAGATGCATCCTAAAGTAAATTAAGA
ACATATTCTCTTTCTGTTAAGATGAAAAAGGCTGTTGCTGTTGGTCAATC
ATCATATTCTGGAGGTTTAATCATATTATTGCATTATCTTTTTACTAAGT
TCGGTGTAGGCCTGTTACTGAATCATAGATTTTCAATCATATATTGATGG
TTTCTTAAACAGGGAAGAGGTCAAATTCTGTAAAAGTCTTCAGTGCACTA
ACATGGAGTTGGTCGTCCAGATCACTTAATCATACAAGAGATATTATAGA
TTTCTCTGATCCTAGTGAAGCCTGTAAGCCTGGAGCTCATTGCATTACCC
TAAGAAAGCTATGCGACGAGGAGCATAAACTCTACAAGGAAGTAAAGGTC
AGTTACTATGTCACGTTTATATTTTATATTTTCGATTGTCAGTTTGTTTC
CTAGCGTGTCCTGCCATTTAGTTTTGTGTTACTAGTAAATATATGAATGC
TGCTTATATTTAAGCCTTGAGGATAGAGGCAGCTAGATAATCTTAAAAGA
TGAGGAATGGAGGATGGCTGTATGCGCTAAATGAAGTATAAAGATTTACT
AGAGTGACAACTGTGTATCACATCACTAACCCTCGACAGGTCCACTAGTA
ACTTACAGAACTCCTCAAGGTCTTTGTCATATTCATTACCATTTGTCTGT
CAATATGCGTCCAATCATGTGTTTAACAATAACAATTTAACTTCAAATTT
TTTTTTTTATTTTATGTTGGACTCTACTGTCCCTATTTGTTTTAAAACTG
ACAAAATACATTCGCTGGTCTATGTAATTTTCCTCTTTTAACTTCAAATG
CTTGATCTCAGTAGAGGACATGTTCATGAAGCTCCTCAATGTCAATTCCT
CTTTAACTCTGAGGAATTTGGACCCAGTGCCCTGAAATAGCAAAACTTTC
AGTTAACTGCAGGTTAGCAGAAGAAATTTGAGTTGCATAATGAAAACTCC
TCCAGCTGCATTTTTGAAATTGGTTGATTCTGTGTTGTATCTCAAATATG
GTTGGAGCTATACACGATCAGACTGGCATATAAGATGTTGCTATACACGA
CCAGATTAGCATATAAGATAGATCATTGCAACCACCTTTGCTGCCCAGTT
TGGTGTCTTAGTTTGTAGCATTGTCAATGTTTTACCGTTTACTTTTTCTG
CCACACAATCAGTGTAGCTTATAACATGGATTATTACACTCACTTTTGCC
ATGGGGTTTGCTATTTTTGCTTGTAATATTTATTTTCTTCTACCTCTTCT
TCCAAAATTTTTACATTGTAATATATGTTTCTTGTAATTAAAATACAGGA
GGAAGAGATGAACAAATTAGAGCATGAGAAAAAGTCCTTGCAATTACAAA
AACAACAAATGGAAGATCAGGACTGGACAAAAACCGAGAAAACTCGAGCA
AGTGTTGAGAGCCTACAGTCTGAGATCATACGTCTACAACAGTCAATTAG
CCGGACTTGCTCAACCATTTTGGTTCTAATAAATGAGGAGCTGCATCCAC
AGCTGTCTGCATTAACTTCTGGGTAATTCTGTTTCTCAAAATTAAAACCA
AGATGTCTTTTTATGCATTGCAATTAGCCTAGCTACCAGAATAAATCTCA
AGAGCTGCTAGGGAACTTGAAAAGTTAAAAATGTATTATATGATGGTGGC
TCCTGTTTCGGATTTCCAAACATTTCCTTGACATTTGTAACTGTAAATTG
TCTGCATTAACTTCTGGGTAATTCTGTTTCTAAAAATTAAAACCAAGATG
TCTTTTTATGCGTTGCAATTAGCCTAGCTACCGGAATAAATCTCAAGAGC
TGTTAGGGAACTTGTAAAGTTAATAATGTATTATATGATAGTGGTGCCTG
TTTCGGTTTTCCAAACATTTCCTTGACATTTGTAACTGTTAATTGTTTTG
CTATGTTGGTACTCAATACCTCGGAGCCTCTAGCTATATTAGAGTCCATG
TTTAGTTTTTGATAAAAGAAAACAAAATGGGAACTGTATCTACAGTCATG
GAAAACACAGAGCTTTTACTGTAAACTTTGCCAGTTGAATCTATTGAATC
AAACTGAACTTATCAAATTTAAGCAGCTAGTCTACTATTAGTAGCCATAT
TGGAATCATAAGACTAGGCTATGAGTTACCACAGGACGAGTTTATTAAAT
CCATAAAGGCTATTTGATGGATACATCATTTCCATTTTTTATTTCTCGAA
CAAGCGTTACATTTTGCAAGAGTGCTGTCTACTTCTATAGTGACTAACAT
AATATATTCAATTCAGTCTAATGGAAATATAAATTTTAGGTTGATGCATA
TGTGGAAGAAAATGTTTGATTGTCATCAAGTTCAGACCCATATTTCCCAG
CAGGTGAATCACCTCTCAAATTACCAATGTGTTGATCCAACTACTGATTA
CCATAAGCAGGCTGCAGCTCAGCTTAAATCTGAGGTCACTTCATGGTGTG
ACAGCTTCTGCAAACTCATAAAATTTCAACGAGAATATGTGAGAACTATG
TCCAGGTGGATCAAACTCACAGATTGCCTTGTGGAGAATTCTGATCTATC
CAGTGGCCCATCTGCAGTTCACGCACTCTGTGAGAACTGGCATCTTGCCC
TTGACAAGTTACCTGAAAAGGTACGCATTTGCTAATCCATGCAGTACTTT
TGTTAAGCCATATGTACATGTGATTGCCCGATGTTCTCATCTCTAAATTC
AACTAGTTCCTGATGTCCTACTCTGACTCTTGTTAAAATTTAGGATCTGC
AATGCCAATATAGATCCAAACATTTATTCTCTGTCTCTCCTCTTTGTTTT
TACATGATGCAACATGATTATACATACAGATTTGTGTAGTTTATATGACA
TATGAAGTAACATACCGAGCTGATTCCTATGGAGTGCATAGAATTTCCCA
TGATATGTGATAGTAAGCTAAATAAAGTTTAAAGTAGGAGGTTCAGCCGT
GCGGGAGGGGTAAGGGTGTATCTGTAAATTCTAACCTCCATTGTTGTAGT
CACAGATGAGAAGTTTATAGTGATATACTTGCTCTCTGAGATTATTCACT
ACTTGATATTTTGATAGAACTTGAGTTTATTTTATTGAAGAAAGTTTATT
ATCTACCAAGGACTTGCAAGCAATCCCCAGACATAATAGAACTTTAATGT
CCAAAAATAAAAAATTAAGCATCACTTTGTACCTCACCTGACAAGAGATA
AGTTTAATCCAAGGTTAAAATGTGTGATTTTTAAAGTTAGTAAAATAATA
AAATTCTCATCAAGGTGAAACCCAAACTTGTATAATATGAAAATGAAAAT
ATAATCCAATTAAAGGCAACCCTTTGGTTGGACACTTCAAGTATTACATG
AGTGTAAGATCAGTAAAATTATTAAATGAACTAAAGAGCATTCAACAATA
TTGTGAATATTAAATTGACAACCACACGCGCTAATAGTTTATGGTAGATG
CATAGGTGCTTAATGTAACACCCCAGTCCCATATCGAGGAGTGTGGAAAC
TTTAGTTCAATTTATAAGCATAAGTACTGCTACCAATGGTACAAACAAAT
CATGATCTTTTGGGGGCCTGTGGTGGGCTTGTGGATTACCCAAGTTGTTG
CAATTGAGCCATTGTATTTCGGCTTATTTTCGGATTCGGAGTTCAGGACT
TGACCCGATTTTCGGAAAAGACCACGAAGGCTGGTGGTATTATCCCGCAA
ATGGACAGAGATCCGGAGGCGGGGACACGAAGCCAACCGGTATTATCCCA
CAATGGCTAGAGAGTTAATTTGTTCTTTTGGTGATGATTGACACTAAATG
CCTTGATCCATACATATTTCAAGATAGACATCAAATTGGATATATTTTAG
TATTGTTTTTTATTGAACTTTTTGCATGATTATAATCTTTTTTAACATGT
GTTGCCCATGAAGACCGTTTCCTGATATATATACCTGTCAACTTTCTATT
AAGCTTTTAGTGGTCACATTTCTTAGGCAGCCGAAGAAGCCATCAAGAGC
TTTTTGTCAGCCATTCACGCCATAGTCTTGCAGCAGGAAGATGAACTTAG
TCTACTCAGAAGATCTGATAAACTCGAAAAAAAATTGCGAAGGGAGCTAA
ACTCAATGGCCGAAATGGAGATGAAGTTTGAGGGGAGCTTTAATGTCGAA
AACCCACACTCTGGGTTGAGCCCTAAGCATCCATTAGTTGTTAAGCGAGC
AAAAGTGGAGGCGTTGAAGAAGCAGGTGGATGATGAGAAGGCCAAGTATC
TCAGCTCAGTTGAAGTTACTAGAGTCATGACCCTAAATAACCTAAAGACT
AGTCTCCCTAATGTATTCCGGGCATTGATGGGGTTTGCTAGTGCCTATAG
TCAGGCATTCGAGGTCATTCATAGTGCCACACCGTAGAGCCGGCGGCACT
CACCAAGTCTATCAGTTATCCTGACTGATTTTTTTAGCCCAGTTTTTTTT
TTTGCTTTTTCTGTGAGGGCCTTCTCAAAGTTTTAAATGCCCCATCTTTG
ATGAAATCATCAATTTGCCCACAGCGAAGAGTGCTAGTTCAGTTTTATGT
ATATAAATCTATAATATCTAAGAAGCTTCCAGCTTGTAGCAAGATGATTT
AGATATAAGATATATCTACTTGAAGTTTTGCAGTTTT