| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017380324.1, is a part of gene, LOC108209424. |
| The genetic_marker, MK016680 SSR0024, is located in gene, LOC108209424. |
| The genetic_marker, MK011070 2_26420019, is located in gene, LOC108209424. |
| 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_017380324.1 | XM_017380324.1 | mRNA | DCARv2_Chr2:26412683..26420601 |
TGCAAATAGCCAAACACCTCTTAGTTTTGGCTCCCTAAATTTAAAACCTT
CATAAACCCTAATAAAATAGAACCCAAATCTACACAAACTTGTGTCTGTA
ATCTCTATCCGAATTGAACATGGAGGACAGAGAAACAGAGATGAAAGAGA
AGCTAGAATCAAAAATAGGCAAATTACACAGTGCCCAGATGGATCTTATT
GCTTCTCTTCAAGTTCAAGTCCCTGATATCGTTTCTGAAATTGATCTTTC
ACTCAAAGTCATATCTTCTTATGGTGGTAAGCCTTATACACCTTTAGCTA
AAACCCCACTTCCAATTCCTACTAAACCCCCCAAGATAGCAAAAACCCAG
TTCAAATCTGTGCTGAATTTGAAGAATGAGGTTGTTTCGCAGTCTTCTGG
GGCGAAACAAGAGAGTTTTAAGGGTTTGAGTAAGTCGAATGAGGTTCCGG
GTGGTGGGGATGGGGAAAGATTGAGTCTCGATAGGATTGGGGGTGGGGGT
AAGAGTTCGCTGTCAATTGTTAGGTATATGGTGGCTGTTTGTTTGTTGGA
GAGGGTTCCGTTTACGCCTATCGATTCATCGACTGTGTTGATGAAATTGG
AGAATAATGTTAGTGGGAGTAATGAGGAGAAGGCTGCGTTGAGGGAGTTG
GGTGGGGATTCAGGGGGGATTGTTGGTGTGGAAAAGGCGTTGAGGTCAAT
AGCAGAGGAGAATGGTGGGGTGGAGTTGGAGGAGTTTGTTGTGAGTGGAA
AGTCCAGGGTTATGGTTGTGGAGATTGATAGGGTGAGGTTGGTTAAGGAG
TTGCCGGAGAGTAAACAACAGGCTGTTAAGAATGAGGGGAATTTGAGTCA
GGGTCAGCAGGCAGCGACAATAGGAGGGGGAGGGGGTGAGTTTAATAATA
ATAATAATGGGATGTTTGGAATGGGGGGGCCGATGGGTAGGGCTCCGGAT
GTGTGGATGGGACCTGGGGATCCGCATTTTCCAGGAATGCCGCCGATGTT
TCCTGGGAGTGGAGGTCCAGGTGCAATGATGGGTCCAAGGGGTGGACCAA
GAGGAATGGCGGGAATGATGATGCATAGGCCTCCAATGGGTCCTAATGGA
CAATTTGGTGGACCTAGTCCGACTTCCATAAAACCCAGGAGTGAAGAAGA
TGATTTGAAGGATCTTGAAGCATTACTTAATAAGAAGTCCTTTAAGGAAA
TGCAGAAATCGAAAACTGGAGAGGAGTTGTTGGACCTCATTCATCGACCT
ACTGCCAAGGAAACTGCTGTCGCGGCTAAGGTTTGTTATTTACTGAACTC
ATAGGGAACACACACACACACACACACACACATCATTTCCATCTTGATGA
ATTAAATAAACTTGGGCTGTTTGTTAATGACATATGGCATCTGGATTATC
TAATTACAATTTGATATGCGGAAGCATTCTTTGTCATCATCAATCACACA
TGGTAGACACCTTGCATCCTAGAACAATGTTAAAGTTATCTGTAAACATG
GTGTTGAGGACATGTTTGGTGCTTATGTTGATTTCTGCTTTTCATGATAA
AATATGAAAGTTATGTGAACTGCCCTAAATAATGGAACCTGTGGATATCT
GATTGATTCAAGTTACAGACTTTCCTATTGCCTCCTTTTTAGATACTTGT
ATATAACTGATAACACAATGAGGAATTGAGGATACAAAAGAGTACATGAA
GTGTGTGTGTGTGTGTGTGTGTGTATTTGCATTCTTTATCAGTCATGGGA
ATGAGAGTAGTCTACATTTTAAGGTGATCGCTAACATGCTGAAGGTGGTT
GTATGCTTTAGCTTTATTATGTATTTAGTTGTATTCCACCGTTTTGTTCC
TTCTCTGTTATCACTCACGGTCTCTAGTTATGAAATAATACATATACGCG
CGATGCGCCTGCTCGCGCGCACACATTTGCACTTATAATTATTTTGTTAA
GTTGGTAAATAACAGTTGGCTAAGTATGCCATCATGTTCAGTTGTCTCAT
CTCGGCTATCAGTATGACAGTCTCAGCCTCTAATTAGGAGATAAATCAAT
AATACGTTTTCTCGTCTGCACGCGGACTTATATCTATTTTGTTAAGTTGA
TAAAAGAAACAGTTGGCTAATAAATCTACTTTTGTGGAAATATCCATATT
TGTATATTGTATGTATATTGTAATGATAGTTATCTTTGCTTCCCTCAATT
TGTTAGTGCTTTTACCATTATGACTGAATTAATACTGCAATGATTTCAGT
TTAAAAGCAAAGGCGGTTCCCAAGTAAAGGAGTATTGCTCAGCTCTTACC
AAAGAAGATTGTAGGCGTCAATCTGGTTCCTTTTTTGCGTGTGAGAAGGT
CAGTATAGCTACAGTCGTGTCATTGTAGTAAACAATTTTTGAACTCTGGT
TGTAAATGTTGTAAACTAAGTCATCTTTTATTTTTATCCTGCCGAAATGT
CAATGAATTTATTCATGTTTAGTCTTCCAAGTGTCAGCTATACATTACAT
TGAGCTAGGTTTGTTTTAGTAGGTAATTTTTAAAGCTTTCATTAAATAAA
GGCTTATTAGTTCATTCAGCTTTCTATTCTCGGTGAGTTGAGGCCCGTTC
TAGGGTTTAACAACTTGCAGCAAGATTTATATATTTCTAATTAGACAGTT
AATACTGTAGGCAAATTGAACAGTGGCTATTTTGTGTACTCGGGTGAAGT
ACAAATGTTGATCTTAAAAGCTGTCATCACACACATTTACTTATATTTCA
TGTGATGGGCTGTAATGAGTAGAAAGTTGTATTTATGGAATCACTTTGCT
TGAAACAACTGCAGTTATCTAATATCATATTAAAGAATTATTTTGTTCTC
AGGTTCATTTTCGGCGCATAATTGCCCCTCATACTGATGTTAATCTCGGG
GACTGCTCCTTTCTGGATACATGCCGACACATGAAGGTGAACTCTGTTTT
CTTTTAAGCTTGTATTTCTGCAAGTGAAAGATTCTTGTTATTTACTTAAC
TAACAACTCTTATTTTATAATAGACTTGTAAGTATGTTCATTACGAGCTG
GACTCAACTCCAGATATATCACAAGTGATGATGGGTATACCTCAAAAGAC
ACTCAAGCCTCAACGTGCCGAATATTGTTCAGAAGTTGAGCTTGGTGAAT
CGCAGTGGATAAACTGTGACATTCGTAACTTCAGAATGGATATCTTAGGC
CAATATGGAGTTATAATGGCAGATCCACCGTGGGACATTCATATGGAATT
GCCTTATGGAACTATGGCGGATGATGAAATGCGTACCCTTAATGTTCCTG
CTTTGCAGACTGATGGTTTGATATTTCTTTGGGTAACTGGACGGGCAATG
GAGCTTGGACGAGAATGGTATGTTGCCGCATGTGTTTTGAGTTAAAATGA
CTAGTGTAGGAAGTATAGAAGCTTATGATCGTAAAGTCATGCATATGCAG
TCCTTTCTGCCCTATATTTTTCATTGATTGAATATGATTTCATTATCTCT
CTCCTTATCTGTTGTCTACTTTTTTTTAATGCCTTTTGCATAGAAATGTA
TGTCATACTGTCATAGTACCCTCTGAGTGAAATTTAACTTGTGCGTCCAT
ATTACTGTAAAGTCTTAAATGCATATCTAACCCCTAATCTTTCCTCAAGT
CTTACTATCAAATGCTGATAGTTTGAGTTTACCTTGGAAGGGTGTTTGTT
TTTAGATAAACCTTAATGCCATAAATTAGGACAATTTAATTGCAAATGGC
ACGCCAAGTTGGATTACATTTCAATTGAAAAACGTTCTTAATTGAAATGA
CCGTTTTACGTCTAATTTATATGCAGAACATGTCCTCATTTTTCGGTTAA
GTGTGTTCTAATTTCTGGAAATAAGTGTGCCATCCAGCACGTTGATAATC
AATCATATTCAAGAGAACAGGTTCAAGTGTCAACATTGTGCCAAACTGTA
GGGTGTACACTAGCAAGCTATATTAAAGAAATAATGTATTAAGGCAATGG
TGTGGAAAGCACTCTCACGCTGTACATGCAATTCAAAACGATGTGATTTG
ATGCAAGTTTCAAATCGGACAAAGTGGTGGCAATCTCAGTTTACAGTTCG
GGTTCGTGTCTATAAATTGGTGGATTTCAGGTCAAGCTAAAATTCCCTAG
AATTGCATGAAATTGAAAATCTGAGTTTAAGGGAATGAAATTCTAATTTC
GGCTCATTTTGGGTCACTCACGGGTTGACCAGGTCATTTTTGGGCCACTT
TTGGGTTTTGTCTCGGTAAATCAGGTGCGAATCGGGTCAGGTTTCGGGTC
TTGTCTGATATTGCCACCCAACAAAATAGTTGTTTGTTTATGCACGCTTA
AGAAGTTACACTTGAATATTGACTCTTACATTTTTTTGCGAGTTTGTGCC
TTTCACCGCTTCACAACAATCTTGTAATATCCGGTGTTTAACTTAAGAGT
TCAACCATAAGATGAATACATGTATGTGAGTTGCCCTCTCTATCGAATGC
TTATCACCATTGGATAAACAAGTCTGAAATTTGAAATTTATTCCATCTGA
ATGGTGTTTAATGTCAAATTTACATGTTGATTATTGTATACTTGTAGATT
ATTGTATATTTAATAAGCTTACTTGTGTATGTACTAAAAAATTTATTGCA
CTTGTTTATGTGCCCATTTCATTCTGTCACTTTAGTATAGCCACTCTACT
AAATCATCATTCAGATTTCACATATCCCTTTAACATATATGTGAATTTAG
CAGTCCAATTCTGGTCATTGCACAAAAGTTATACAAACCAGTGTGTACGG
TAACATCTTTGGATAGACATTGAAATGACTGCGAGACATTGACTGGGATT
ACAATAGAGCAACTATGGGTTTTTATTATCAAATTTAGTGTGTGTATGTT
GGCCTGCTTAATACAATAGTTAAAGCAACTATGTAGTTGTTCTATCTTGA
TATTTTTAATTTATGTTATGTATGTTAGCCTACGTAATACAATGTTTTAA
GCTCCGTGCTGTGTCCTTAAGAATGATCTTTAGGCTATAGCAAACATTTT
GTGTATACTTTTGCGTATAATACCTACAGGCTACAGCACCCTTTAGCTAT
GCTGGGCGCTTCAGTTCTCTGTCCAAGTTTGTTCATATGGCATCTTTTCC
TCTTTTTTCAGTCTAGAACTTTGGGGGTATAAGCGCGTGGAAGAGATCAT
CTGGGTGAAAACTAATCAACTTCAGCGAATAATCAGAACAGGACGCACAG
GCCATTGGCTCAATCATAGCAAGGAGCATTGCCTTGTTGGAATAAAAGGA
GATCCAATTGTGAATAGGAACATCGATACTGATGTAATTGTTGCTGAGGT
TCGAGAAACAAGCCGCAAGCCAGACGAGGTAAAAATAGTGCATGTCCTCC
ATTCTAGATATACATGTAAGATGCTTATCAAAGCTTATTGCATATTGTAT
TAATATGTAATACTAAAACAGAAATTGGAGACAGGACCGTAACATATAGA
AAAATTCAGATTTGCTGGTCGTTAAGCATCTATGAGGTAAAACAGTAGAT
AACTAATATATAACTGATGCGATGTGCACACACAATGGTTAAATTTTGGT
ACATATCAGAACTATATACATTATATCATTGGCATGGATGAATAAGAAAC
CCATACTCAGGCTAGGCTGAGAAACATTTTAATGCTTTAAATTTCAGTGC
ATACACCATAATTACTTTTGAATAAACAAATATTTATTGGACCTTCCCAA
TTATTATTTTTTTGAGTCAAGTTACATATCTTTCTTTTGGATAAAACTTT
CTCTTTTGCATTAAATTTGTGAAAGCATGTATCTTATTTGACACGTTGAC
CAGAAATTGCAGCCAAGTCCACAGACAATACCTGGATGTAAAACTTTTTG
AGTGCAATTACTTTCACTTCCATTAAATATCAGTAATACAAATAGTAGGT
CTGCAAAAATAAGAAGAAAATACTTTGTTTTGCTATCCTTTTCCCTCTGT
TTGATGTTTTATTATTCCCTAAAGACTGAAGGTCACACCATCACATAGCA
TACAGAGAATTAGGACGTCACGTTAATATCAGAGCAGAGTCTGATATGGT
TATTACATTTTTTTAAGGGGTCGAAGAATAAGTTAAATATTTATTCTGAT
GTATCTGGCTTCTTCCATCGATTATTTATTGCATCTGCTTTGTTCAATTA
ATTACTGTTTTCTGAGTAACTTTTAAGAAGTGAAGTTAGCACTATATTGA
CCTATTAATTGGCAGATGTACCCGATGCTCGAGAGGATAAGCCCAAGGAC
AAGAAAGCTAGAGCTGTTTGCTCGAATGCATAACACACATGCAGGGTATT
TTTTTTCTTGCCAAAGCACCACTTTTTTAACACTAACAGTGTTTTCTTCT
ATAGCATCATTTTTTTCACTTGCGGTGCTTTTGTACTTTTCCTGATAAAT
GAATTAAACGGTTGCCATCTCCTGCTGCCAAGATCATTATTGTTTTGTGT
CACTATATGATTTTACTGTAAATATGGTGTAGAAGTATGATAGAATGAAA
TCTAACTATCTTGCTTACATTGGCCAATCTATCTAAATAGTTTCACCAGT
TTAGCTGGCTGAAGCCTTGCGGTATGTGCTAGACCCAAAGTTGAATCAAA
AAATATAATTTGGTCCCTATATCTGCAATGCATTAGGTACTTAGTAAATT
CATTTTCGGATGGAGGTACTAATATTGGGTACCTTGTAAATGCTCTCTCA
GCATAACACTTGTGCCTAATACACCTATTTTCCTCTTTTTAATATATATA
GGTACTAAGTTTTAAAACTTTCAATTTAAAGGGGCTAAACCTCTCCAGCA
ATTGCCAGTAAAAAAGATTTTTTTTATCCAAGAAACATAGGCCGATAGAT
CTGAGCACGTGACAACAAAGATTTAGCAATTCCTAACAACAAAGATTAAT
TTCTCTACCTCCCTAGAGTAAAGTCAAGTCATAGAACTGGATCAAGAAGC
CACCACTGTCTTGATTTCTGCCTCATCTCCTAATGTTAATAAAGTTTTAT
TTTCTGCATGTTCTACTATTCTGAACTTTAGTTTCAAACTCATCACCGTC
ACTACAATTTTTTGGTTTGCTGTTGGTGACAAGTTGTAATAACAGTAGGT
CTAAAGTTTTTGTAATTTTGTGAGATTCAGCCAGAGTATGGGATTTTCAT
TTAATAAGTTCTGTACATAAATAGGTGGATGTCACTAGGTAATCAGCTGA
ATGGAGTCCGGTTGGTTGATGAAGGGCTTCGAGCAAGGTTCAAAGCTGCA
TATCCAGAGGTTGAGGTCCAACCTCAGTCTCCTCCTAGGGCTTCTGCCAT
GGAAGTGGACTCTAGTGCGCCTCAACCACGAAATATGTTTAAAGGGGGTG
AATCAACATCAACATCAGCACAGTTTGCAGATGATAGAGCTCCAGAGGCA
GCCTATGCCCCTGACAAAAAACCAGTAAATGTTGATGCGGAGATGACAAG
CTAACGACTGATTTCCTTCACAATAGTAGGTCGTGACTTTTGGGCCTTCA
AAATAGTGGGTCGTGGCTTTTGGGAGTTTCAAGCAGCAACCTGCATAAGA
TGTTAACAGACCTTTATACAACAAGGATGACCTAAACAGAAATTGATAAT
CATTCTATGTACAAGGTTGCCAGTCGCTGTTTTGGCTGCTAAATGTGAAT
TATGTTGTTAGATTAAATTTGTTGTGCCAATAGATCGACCTTATGTCCGT
CCGATGGAATTGGAACCTACCAAGAGGCTTTCTGTTTAGCACAATTAATT
AAAAGGCTGTTGTATCATCTCTGTAAATTACACAGGAACTGCTAATGGTG
CTCTGCTTATTGGCCTTTTGATGCCTTATAGATATTATTGTCACTTTTGT
GGTGCCTTTTTGTCCTAA