| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017382213.1, is a part of gene, LOC108210798. |
| The genetic_marker, MK017463 3_6329590, is located in gene, LOC108210798. |
| The genetic_marker, MK002227 ESSR-122, is located in gene, LOC108210798. |
| 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_017382213.1 | XM_017382213.1 | mRNA | DCARv2_Chr3:6328202..6336034 |
TAATTATTAACCGAACTTCACTTTGGTTTGTAAAAATTGGGATAAAAAAC
ACAGAGACTAGGGTTAAAAGAGGGGTGAATTCAACACGAAGATATAATTT
GATGAGCGATGTCAGATGTGAATCCTGCTTTCTATATATACGATGATGTA
GAAGACGAAGATGTTGTTGTTGTAGAAGATGTTATGGACCTAGACGAAGA
GGAAGACGATGACGATGAATATGAAGATGACGAAGATGATGATGATGATG
ATGAAGAAGACGATGAGGCAGTTTCGACTGCGGCTATTGTGAAGAACAAA
ACGACACCGTTGAGTATTGATGATGATGGTAGCGGCATTGAGGAGTTAAT
GAGCAAAGATAATAATGAAATTGATGGATTGTGTTGCCCAATTTGTATGG
AGCCTTGGACTTCTGAAGGTGTTCATCAAGTCTGGTTAGTGCTTTCGGAT
TCGTTTATTCCGCATTCTCGAGTTTACTTATCTACATTATTTGTATAGAG
TCCGGTTTAGTTCTAGGTTAATTGTGCTGAACCTTAGTCATTTTATGTTG
AAGTTTTCGAACAATGAACATTTGCCGTTTAATTGAAGATAAACGAGTAA
GGTTTACTTAACAGTTTTGCACCGAAATTCTGCAATGTACTTAAGGTTTA
GGTAGTGAAGGACTGATGAAATATCACTATCTAATAAAACTATTATGTTG
TGTAATTATGTTGAGCATTAGTTATAGACGTGTTGTGTGTGTTGAACCTT
GATGGTCTCATGATTGTTATGTAGTGTAGTTATTTTCATTTAATCATAAC
GCCGTACTTTTAGAAGCGTTTCATTTGTTTGTGGGGAACACAGTTTAAGT
GACAACTACGCCTTCGTCCACAATTATGATTTTGACAAAGCCATGTCTAG
TAAGTCTTTAGCATTTGTCTTAATTTGTGACTCATTTATCTTATTATCAT
CTGAGAATATAGTTAAAAAGTGAAATGTAATATGACTTATTTGGTATGTG
GGTTCTAAAATTAACTGTTTAGTTGGTTATTACGACAGTGGAATGCTGAA
GCAGAGAGTGACTTTAAGTAATTATAGGGTTTTTACACCAAACTATTGTT
GTATATTTTTTTAATGCATTGCATTATTGCAAACCATACAAGTTATCGCT
TGGGTAGTGGATATTTCATGTTAATCAATTAAAGTCTATTTGTTACTTAC
ATCAGTTGGACAGTGCTTGGCATGGGATACTTGCTAGTACTATATAATAC
AACTGTTTTTTAATTTTTTTCTTCGGACTGTCGGATGATACATATATGTA
ACACAAGTTAATCTTCTACTATCTGTTAAGATCATCTGTGTTGAATGACA
TTCTTATATTCATCCCTCTAGTTTAGGTTGCATTTCCCTGATATTATAGC
TTCCATGTTTATGTGGTTGAATGACTGCAGTTGTCTTCCTTGTGGACATA
TTTATGGTTTGTCTTGCATACAGAAATGGATTCGACAACGTCAAAGTTCA
AGGAAGGTATTTCATTGTATTTTTAGTATGTTTAGACGTTTAGTAAAGTG
CACTACAGATGCATATATATCAACTTCTGATGTGTTTTTGACATTCTATT
GCCTAGTGTCCTCAATGCAAGAGAAGTTGCAGTCTGAAGGATGTTAGATT
ACTTTATGCATCCCGGATTGTTGTTGTTGATGAAGAACTACAAAAGGTCG
TGTATCAGTTTCTTGGGATGCTTATGAGATAAAAAATACATGAAATTTAA
ATATGAAATGGTTACCTCTTTGCAGAAAGTTCAAAAACTTGAAGCTAAAT
GTGCATCTCTTGACACAAAGGTAAGACTGGATTACTTTATATAATAGATG
AATTTCTGAATTTTAGAGAATGTAGGGTGCTGTTTTGATTGATATTATAT
GTAAGTTACTTTATATTTTTTTTATTTATGTATCAAATATGTTTTATTAT
TATATGAGTTGGCCCCCGTCGAGATTGAGGTCTGGCTCTGTCCCTGGTGA
CCAGTCATTGCGTGGGAAACTTGTTTCCAGACCCATAATGGAATAAAGGA
TGGTAAACTGAGTGCTCTACATGTGATTTGTCCCCCAACCCAACCACCAG
CTTTGAAATTACCGTGAATATGATGAATATCATTTCATCCTTATTAAAGT
CCACATCGCATGGATTTTATTCATTAAATTACTGGTTATCTCATTGCACG
AAATTGTCCAAATGCAGTTTTCTCAATGTTAGAGAAAATTGTGCATATAT
GCTAATACCTATTATGTCATTATATACAGCATGCGGAATGTGTAAAGAGA
GAAGATGAAGGGAAAAAGAGAGAAGCTGAATTATATCTGCAGGTGCAACA
ACTCAAAGAGGCATGTTTAATATGATCTCCTCCTTCCTCTCACTTTCTCC
TCCCTCCCTCCATCTGGGACCACTTGCTATCTCACACTTTTTTTTTTGGT
TTCTGTTGAAACAACTTGTGGTTTCTCAGAGAGCAAGGTATTTGGAGGGC
ATGTTAGAACATTCCGAGAGGACAGCAGGATCAGTCACTGCTAGCAGTGA
TTTTCCAAGGAGTTCTTGTACAGGTACATTTGATATATGGTTTCGTATTG
AGTGTAAACTTTATTTAGCAATATGTTTAAGATGAGTAAATTACTGAGAA
TTATTATTATTCATGGCTCACAGGACAATTTAGGAAGACAGGATGTTCCA
ACAGCTTTGAATTGCAGGTTCATTATTTTACCCTCTTTTGTTCTACAAAG
GTTATGGAATGATTTCTCAATTGCTTCCACTTTCTTAATATATTGTGGCT
GAGTTTGTATTTTTCAGGAAACATAATAAGCACATTAATTATTTAATTAG
TTACACATTAATTATTTAATGACTTAAAAAATCTGAATGATTGACTGTGC
ATCAGTTCGGATTTGAAAGGGAGTGATTGGTGGAATATTTCAGCTTTAAT
TTAGGGACTATGGTTTGATGTTGGGGGTTATAAATAGGAAAGCCATTGGT
ATGTTGAAGGGCAGGAAGAATTAAGAGTGAACTGTGTGAGTGGAGAGTGG
GTGGTCTCTCGAATACTACCTAAGGTTGTGTTGCAAGAGTGTCAATAATC
TGATTTAGGTCATATTGTCTAGTACTCCTCACATTCCTTTTATCAGCATA
TATCAGCTCCTATCAGTATTCTTGATTTTATTCCTAAGAGATCGAGTACA
GATTAATTCTTGGGTTGACCTCACTATGGTAGAAGTGAAGTTCTTTTATG
ATAGAAAAACTGGAACATCCATTTGGTAGATATGCTACAACAATATTTGT
TCCATTTTTTTAACATGATATATATGGAATTATAGTTAATCACGCAAAAT
AGGTCTAACTAAAGATTCTATGGCTTTATAGTCTTAAATATATTATTTGT
CATTTGTTATATATGGGGTATAGACATTTCTACGAAATTTTCAATTTTTT
ATCTACTCTTATTGACTTAATAGTGTAATTTGTGCAGAAAGAGTTCAATA
TTGAAGGTGCTCGCGTATTTGATGTGGATGCTTCTGGTCAAGTTTTGCTT
ATTGCTCGAAGGCTCACTGGAATGGGGGGACTGTTTGGACTTACTAAAGT
AAACTCTTAATTAGAGACGGGAATGTGAAGTTGGCAAGAATATTGCATAT
TGAGATATATTCTGAAATTTTGTGCGTCTTTGATTTGCAGATAAGTTTGG
TAGCTCCGCATGATAGATTGGATATGCAACTTCCTTCAAACACAAAGGCT
GTTAGAGACTTGCGATTCTCTCCCCGTGACAGATTGTTACTGGTTGCCTC
ACTAGGGAAAAAGCTGTCAATTATTAGGTTTGCTTGTGCTTGTTTCAAAA
TTTTTTTCTGAAACTTTTTGTGGTTCTCTCTACAATGAGTCAATGACTGT
TCTCATTATTAATTATTACGTGATATTTATTTTCAGTTCTCAAAGCAACA
CCACAGTTCTTACCTATGATTTGCCGGTAAAAATTTCAGCCTTTCATTTT
TCTGTCTTAGCTTGTATAAAATTTAATCATTATTTAGTGCTAGTCTGCTA
GATGTTAATTTCCTTAAATAGGAAAGAGAATATTGAACTATCCTTTGTAT
TTAGTAGATCACTTTTTGCGGTCTTACTGCTTTCTTAGCATGATTGCAAA
ATTGCTGAAGTATCATTGGATTCATTGCACGCATTATCAGTTCAAAATGT
AGGTTGAGCAAAAGAGAGAATAACTTAGTTTTAACAAGAAATATTATATC
AACTTGTTCTATTAGGTGGTAGAATGTAAATAGGTATAGTTTATAGCCTT
TGGACTTTGGAGCCATAGGCCAGAGGTTGAATCTGATTCCGTGCACTTGC
TCTAAGCCTCTGATTGCTGGAAGGACGTAACCAAACAAATTTATAGTGTG
AGGTGTTAGCCCATTAGGCAATTACCTAGTGCTAAGCTGACAAAGTTCAT
AGCATATGTGTCCTCAGTTTTTCAAGTTTCCCGGGAATCATATTATGTAT
CTGTTGCCATTGTATTTCTAGGCTGCTGCTTGGTCATGTTCATGGGATAT
CAGCTGTTCGAATTATGCATATGCTGGATTACAGGTCATATAAAGTTTGG
TTATCTTAAGGTCTATACTGGATATATCTTGAAATTGATTAGTATTTCAT
AAACACCTCGCAGAATGGCATGCTTTTGGTGTTTGATATGCGCCAAACTC
GGGAACCTGTAAAATGCTTAGCCGGGATAACATGCAACCCGATTCATAGT
TTATATTCGGTTTCACCTGAGTCACCCTCGCCTTCTGGTGTGAGAACAAT
TCTAACTGCATCTTCAATTGGCGCTTGCGAGTGGAACTTTGGAGGTGTTG
ATGAAAGGTATTTTTTTCCCCTCCTATGTTTCACTTGGTGTATGAAGTTG
AGGATTGGGCCACTCTTTTTTTCTGCCCATATTTATAGTATTAGATATTA
GGATTAATGAACTTGGAAGCAAACACACTTGTTTCTGACATGTTTTTGAT
TATTTTGTATGGAATTTGTTATGCTTCTTCCTTTTGCACACATACAGACA
TACACTGACCCGTATTATTTGAGATCTGATACGCTGACGCATACGCATGC
ACACTCTTTTTCTCTCACATACATGTAAGGATACTTATTATGGTTGTGAG
CACACACACGCAGGTCTGCGCATCTGTGCATCTTATGTTGCCATGTCATA
ACCATATTGGACTGACAGATCATTTGAAACCACAATGGCTGAAATATACA
TAACATCGCGTTTTTTCCTCTCATCCGGTTCATTCTTTTACGTGATCGGG
CCAAAACATATTTCTCTGGCTGATCAGGGTTACTGACACATAATCAGCCA
GTAGGTCCATTGTTGTTAATTATATTTTGATTATATAATGTGCCTTGGCC
CTTGAGTTATATTTTGTGGTTCACTTTAAACTACCCCAATTTTTTGGAGA
AGGCTTTTGCTGGTTCTGGTAATATAATTAGCTTAATTAATTTAATTTCT
TTTGCTTATAAAAGGTTCATTTATGTACTACGCTGTCCTCTCTTTATAAA
AAAATTGTTACTGGTTCTTATTAGGAGTTGTTTGTAAGAACTAGGGGTCT
ATATTGCATTATACTAAGAGTTGAATATATTGATGATATGAAAATGCAGT
TCTGCCCGTTTGAGAGAGTCCTGACCTAATATTGTGTGATGGTTTCTACC
ACAATCTGTCATTTGTTTGCATTCTACCCCCTATTCATGACCTGTATCAG
TTTCATTCACGGAAGGAATCTAGGCACATATGAAAATGTAAGCAAAATAA
TCAAAATATTTGCTTTCCTCTGGCTACTGTTTGGAATCTGGAGTTGCAAA
CAACCCATAAATATATCTTATTTGCTGCTTTTACTAGTATTCTATTTAGC
AACTAAGAGGGTGGAAGTCATTGTGCATGAATCATTACAAAAAATCTGAC
CAAACTGTTTTAAAAACAAAATTGTAAATGCCTTTAGATTGATTGTTGGA
GGAACAAATAAATATATGACAATCCTCCAATTCGCACTGCAGGCCATTTT
TGATCCCGGGATCAGATAATGAGGGAGTTTGTGTATCTCTTGCATGTTCT
TCTAGCAATAGTAACATTGTAGCATCATATCGTCCAAAAGTAAACATGCT
TAACAAGGAATCTGCATCCCAAGCTGTTCCTACACCTTCCACTAATGCTA
TGGGAAACTCTGTTGTGGGCTCTCATGTTTCATACAAAAGAACAAGTAGT
CAATGTTTTCAGAAACTCGGATCTACATGTGCCAATGTAAATGATATCAG
GCTGCCAAAATCTGCAATAGTTGACATACGCAACAATGACGCACCATTAT
TTGTGTCTGGGGATGAGGCTAGAGGTGAAATAACGCTGCAATTGCTGCCA
TCATTACTTACTGTTCAGCATCTTACCCCTCAAAAGTTTCCTGTCCGTGA
TGTGAAGTTTACACATGGCAGCAATTCTAGTATACTCGGCTGTTTATGTG
ACGATATATTGAAACTATACTCTCTCAAGCTCTCATGAGAAAAATAGGTA
ACCAAGCTTAATTATATGTTATCTCTTTTACATTTACTTGGATGAATGTT
TTCTCTATCTCTGGCAAAACACAATTTTTTTATTCTTGTTTTTCATTATA
CAGTGCTACTACATGCATTTTAAGTTAAATTACTCCTATCTACATGTATA
GATGTTTGCATATAAGTAATTCTGTACCCCAACTCTACCTTTTCTAACAT
CAACTATGGTGGGAGGGATTGGGGGCTCTCTCAATTTTTATTTTTATTTA
TTATGGGTGTGTATTTGGTTGGCTCTTGATGAGTTGATGGGACAATGAAT
ACTGCAGAATGTATAGAGTTAAACCAAAAGCTATAAAGTTTAGTCTCTGA
GACAATTTAACGTGTAGTCTGGGATTAACATAATGTAAATTTGAAGCAAA
AAATCCTAATCTAGGAGTAATTTTGCAAATAAAACACGCATATAAGAAGA
ATTGTTGGCTTCAAGTACAAGAATAATATAAAGATAAGATGTACTGCTAT
TCTGGGTAGTAATAATTTAAACAGATGCTATCAAATCCTAGGTGTATAGG
TGCTTAACATGATAAAATCTTATTTTTAGATACCATACTGGATAATTACT
ACAGTGCTTCATTTGTGTTCTTAAGATCTGATGTTTGGCATATGCTTCCT
TGGTAGTTATTTTTTGTTACTATTTTTTATATTATCCTTTTCTAATTTGA
CCTACAGAGGTTATCTGGATAATCACTAAATTCCATACAAATATTTTGCT
AGTATCCTGAACAAATCATGAATAGTATTACGTAATGTAGTTAAATTTCC
ACAACTAGTACACTGTTGATTAGTACCGACACCTGAGTTTAATGCTTTTA
GATACATAGATGTTCTAGTATGCAATCTCTGAATTTGTTTGGTTAATTTT
TTATATGCTAAATTACTATATTATTATATAAAATATGGTTTAGGAGATTT
TTTATATTTTTTTGTTACATGTATTGGCTATTGCCATTGAATAGAAATTA
ATTCACTTTGATTAGCACTTGGCAGTAAATGATTTTGCTGTGTTGCAGGT
CAGTTTCGAGTGACAGATGCAGTCCTGCTTTACAGTCTTGTTTCTTATTG
AGTGGAGGTATATAGCCTCCCATTTATGTGGTTAATTTGTTAGATTTACA
AAGATTAGTCATTAGGTTTCAGATGTAATTATATATATGGTGAAATATGT
AGAGTTTGTATTTGATGGCAAAATTATCAGCATTCTAGATTTCAAATTCA
ATGGCAATCTCAATAGTACTTATTTGTGTCAA