| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017371210.1, is a part of gene, LOC108202695. |
| The genetic_marker, MK010868 9_25402413, is located in gene, LOC108202695. |
| The genetic_marker, MK001246 BSSR-089, is located in gene, LOC108202695. |
| The genetic_marker, MK003815 K1259, is located in gene, LOC108202695. |
| 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_017371210.1 | XM_017371210.1 | mRNA | DCARv2_Chr9:25401900..25411516 |
AACAGAGTTGAAGTTCCCCGAAGCCAAATTTCACATTTATTTTCACATAG
AACCCTAATCTCCATTTCTCCCTGTACAAGCTTATACACACACTAAAACA
CACACACACAACAAAAATGGTGAAGGTACGGATGAACACGGCTGACGTGG
CAGCTGAGGTCAAGTGTTTGCGACGATTAATCGGAATGCGTTGCTCTAAT
GTCTACGATTTGTCTCCCAAGGTATCAAATATATTTTAACAGTTTTTGCT
TGTTTAATGATTTTTATGAAATATTTAGTTGATTTTATATTTACTTCAAT
TTGCACATGTTAATTGATTTGCGCGAGTTGTGTTTCTATAATAGAATGTC
CAGATTTTCGTGTTTGTGAGTTGATTTGATGTTGTGGAAGAAGCTGATAG
AGTTTTGATGTGTGTGTGCAGACATATGTGTTTAAGCTTATGAATAGCAG
TGGTCAGACTGAATCTGGAGAGAGCGAGAAAGTTTTGTTGTTGATGGAAA
GCGGTGTTAGGTTGCATACTACTGAATATATACGGTACGCCTTTTAGTTG
TTGCTGATTGTGATTTCATATAGTTTTAAATTATGCAGATATGATGACGA
TATGATAAATTAAGGTATGCGTTTTAGATGCTGCTGCTTACAAAATGAAC
GAACTTAAATGTAAGGAAATGTAGTAGGATTTTTTTGATAATATGGTTAT
CTGTCGGGTAGAGGCTTGGAGTTATATATTATTTACAGGTGTATATACGT
ATTACATGGTTTGTCACTTTCTTGAAATGAAATGAATTTTTATTTTTAGT
TTATGATTGCAACACCGTTGGGCCGTATATGATATATGATGTATAAACAT
TTGGCGCTTCGAAGTTTTTAGTAGCAGGGGGCATTGAACTGCATACTTCT
CGTGGTTTAAAGAATAACTGATGGCAAAACGATTACCTTTCCAAAAAAGA
ATTCTCATGTAGTGAATGAGGATATAATTAATTTTTGTTGTGACAACAGC
TACATTAAGTTCTAAAAAAGAATGAGAAGGACTGCAGGAGTCGTAAAATT
TTACGCGTCGGTTTGTTTTTTTATGTAGGGACAAAAGCAATACTCCGTCT
GGCTACACACTTAAACTGAGGAAGCATATCAGGACTAGAAGGCTCGAGGA
TGTGCGGCAACTTGGATATGATAGGGTATATAACTTTAAAGAATCTTTAA
TTAGCATACAAGCTACCCTAATTAGCATACAAGCTACCCATAGTAGTTAC
TTATGTTTTGTACTGCCTCTATTCTGCTCGCTTCAGATAGTTCTCTTTCA
ATTTGGACTGGGTGCTAATGCGCATTACGTTATATTAGAGCTATATGCCC
AAGGAAATATAATTCTCACTGACTCCGATTTCATGGTCATGACCCTTCTC
CGGTCACACAGGTTGGTGATTCTTAATCTATATAATAACATTTTCGTTTT
CTGTTCATCTTACTTAATTTTTTGAGATTCTGATTTTTAAAAACACTGGA
ACTTGGCATAAATCTCACCATTTAATTTAAAATGTAATATAAGAACATTA
AGCAATAATCTACATTGTGCGAAATTTATACCACTTAAATTGAATTCTGT
ATACTTCTAGTTCTAGGATTGTGACTAGTAATTGTTTTTTATAGTAATAA
GATTTTTGTAAATATCGATATTTATATTTCACTTCAAGCAGAAGTATGAA
ATCTATAGATGAATGAGTTGGTCACATCATTTGCTCGGTGCTAGGATGGC
ATTGACCGCATTTTTGGTAGGTTCTACATGCCTTCTAGGTCTGTCATAGT
GTCACACATATAAAATAGTGTGTTCTTTTGCGTTGGCTGAATTGAGAAGC
CAACTAAATAAAGAATAGAATCCTGATCACACAAGTGTAGTTTAATTTGA
CGATTCAACACTTTGTTTGCTACAAAGTTCCAGGTAGTTCAACTCAAGAT
TTTGGAGGAATACTCGCTGTGCAAAGTATTATTGGTTACTAGATTCCTTA
ATTAATTTTTGTAATAGAAGCTATAATGTTTGGTTTATGAAGTCTGCAGT
ACTTCTACTTCCCGGCCAAATAAAATTAAATCACCAAATCTTTGCAAGTC
AAAAGACTGGATGGATCTGCAGTGTGCTAAAGTTAAGGCGTTACACCATA
TTGATGATATCCGGATATATTAACTATATGTCTAAATCTATGAAGTCAAG
TTTATAATGCAGTATTCTACAACAACTATTAAATGCTCTACTCCTTAAAA
TTTCAGTTTGCACAATGTTTTTTTGTGTATTCACCAATTCTAAGTTTGGA
TAGGTTCTATATATCTCCTCTGTTGGCGTGTCCTTACTAATATCCAGGGG
GGGGGGGCATAAATTAGTTTAGTGTGAGCAAGAAGGTGCAGCTTAAATTT
TTTAATATTTTTCTTCGTGTTCTGCTAACATAAATATCATTAAAAAAATA
TACAGGCTTCAAATCTAGCACATATTTAGTTTGTTCCTACTAATGTTTAT
AAATTGTTAGGTTTTTTCAATACTTACAAGTTACAATAGGTACTTTTGAT
TAAGATTAATGGCACACTCATAAGCTTACACATCAAAGCAACCCTAACCA
CTATCGCATAATATCATTGTCTGTTAACAAATCAACACAATTTCTTCAGA
AAAGTTAAGACACTTTCATAAGTTATACAACAAAATATAGACACTTTCAT
GCAAATTTATATTTATTAAACCTGAAATTATTAGTATATTTCACACAAGT
ACAGTATGTATATATGTACTCAGTTGTGTACAGATAATAGACTTGTGTGA
TATATATAGGTTTATAGTATGTTAAAATTGTGCAAGGCTTTTTATGTGTA
ACATACCTGATTTTATTATTATCTCTGTACTTGATACTTTTTGCTTACTA
GACTTGATGATAAGAAGTTACTAATGATAGGGATGATGACAAAGGATTGG
CCATCATGTCACGACACCAGTATCCGTTAGACATGTGTAGAGTTTTTGAG
AGGACTACGAGCGAAAAGGTACAGGATGCCCTTGCATCTAAAAGGGAACA
TGAAAACAGTTTAAACGCGCAAGTTACTGAAGTGGGGGATAATGTTTCTG
ATGTACCTAAAGGTAAGCAAAACCGAAAGAATACTAAGTCTACTGATTCT
AGTAAAGCAAAAACTGGTGCCAGTTCCAAGCAACTGACCTTAAAGGTTGC
ACTTGGGGAAGCACTGGGTTATGGGCCGGGAATATTAGAACATATTATTC
TGGATGCTGGCTTGGCTCCAAATTTAAAGCTCACAAAGGATTTCGAACTA
GACAATACTGTTCTTCCTGCTCTGTTAAAAGCTATTGACAAGTTTGAGGG
CTGGCTTGAGGACGTTATAAAAGGAGATAAGATCCCAGAAGGATACATCT
TAATGCAGCGGAAAGATTTGGGGAAGGACTCTAGTAATTCTGAAACGCAA
AGCTCTAATCAGGTTTTATATTTTGCGCATGCATAATCTTATGTTCAATG
TATTTTTTTGTGGCTTACAGATTTTGTTGGATATTCTAAGATGTATGTTG
AAAGGATTGCAACATTGTATGTATGTAATTACTCTTGTTGTACTTACAGA
TCTACGATGAATTCTGCCCGTTAATGTTGAACCAGTTCAAGTCTAGGGAT
TCTCTGAAGTTTGAGACGTTTGATGCATCACTGGATGAATTCTACAGTAA
AATCGAGTCTCAAAGGTCTGAACAACAACAAAAGGCGAAAGAGAGCTCTG
CAATGCAAAAACTTAACAAGATACGCACTGATCAGGTTCGAACTGAAATT
GGCTTGAAAGATCCAATATTTCCCAGTTTATAGTTTTTGCATCATTCTTG
TTTTCCAGTTTAGTTATTGATTCAGTTTGCTGTGTCTTCATACCCTGTGG
GGTTTTGATAAGTATTTTCTGGCATGGCATAATAAATATATATCTAATGG
ATACTATTGTCCTTAGGCAGCTTATCTGCTTCAGGTTTGAGGTACCTGTT
TATTTTTCTCGTATATCTCTAGCTCTAGTGTGATTAAGGCAGTAAACTTC
TATTGATTCGGTCTAGAGTTCAAACTTACAAATTCAGAATTTAGCTTTCA
CTGATATTGATCAACATATTTTTATATTAAATATATCGATTAATGTTTTT
AAATTTGAAGCCTTTGCAATGTTTTTAGGAAAATCGTGTGCATATATTGA
AACGAGAAGTTGATAATAGCATTAAAATGGCGGAACTGATAGAGTACAAC
TTAGAAGATGTTGATAATGCTATATTAGCTGTTCGTGCTGCTCTAGCAAA
TGGTATGACTTGGGAAGATCTAGCTCGTATGGTCAAAGAGGAGAAAAAAT
CCGGGAATCCTGTGGCTGGCCTCATTGACAAGCTCTACCTTGAAAAGAAT
TGCATGACGCTTCTTTTGAGTAATAATCTTGATGAAATGGATGATGACGA
AAAGACACAACCTGCGGATAAGGTATCATGTGAAGGTTTATATTTAGCTC
TCTCTTCCCCTCACTCATTTTTATAATGTGTGATGTCCCCATAGATCAAT
AATTGTGAATGTTCAAAGATATGATAATTAGTTCCATTCTAATCTTTTAT
ATGAAATTACATAATGTTAAACCGTGTGTAAACAATGTTATATGTCATCA
GAGCACAATACCGGAATCACTATGTTCTACATTTGAATGTTTGAACCGAG
TCAAGATGTTATTTATTGTTGAGAGTTGATATGGTAATGGTATTTGCAAG
TCTCGGGTCTTTTGTAATAAGTAGCTCTGCTGGCTTATTAATCTAAACTT
TTAACCGCAACTTCCTCGTTGAACCCTTTAGGTTGAAGTTGACCTGGCAC
TTTCAGCTTATGCTAATGCACGACGCTGGTACGAAATGAAGAAAAAACAG
GAAAGCAAGCAGGAAAAGACAGTCTCAGCTCATGAAAAAGCATTCAAAGC
TGCTGAGAGAAAGACCCGATTCCAGCTTTCGCAGGTACATGAACATAAGA
GTGACTTGCCTTGAGATTTTATCTACAATAGTAGTTTTTATTACTTGAAC
ACAGTCACTTGTTACATATACGTACAATCTGATTATTTGCAAAAATAAAA
AACTATTTGATCAAATTACTACCACACCAATGCTAGGAAGCCTTGTGGAG
ACCACAGGTAGTATCTTTCCTCCCAGGTTTCATGGCTTTGGATGTCAGAG
GCTGCAATAGTTTTTATTTACATGCTCAGTCGGTTGCTCAAGACCTAGCC
CCAGAATGATATTAAACATTTGCAAATCTTTGTCACGTTAATGTCATCTA
TACTTTCTGATGCAACATTCACCAACTTCTGTAAGAATGTAGAACTCATA
AATTAAGTAATTTTAGTAGCCATTATATTATATTGAGACGTTGTTTGTAG
CTTTTGTGTGGTAATTTCTATCGAACTGACTTTTAGTTGCTTCATACTTG
ACAGCTAAGCAGATAGTAAATCAAATAGAACAGAGTAGAAAAGGTTATAA
AAAAAATTGAGGTGGAAAGGAGTTAAAAGTGGTAATATAGGTTTCTAGTA
TCATTGTACCGTATTGCTGTATCTTTTGAATTTTCTTATATAAAAATACA
ATCTTGATTGACATATATTAATCTCTTACTGTAATTCACTATTGTAATTT
GCAGGAAAAAACTGTTGCTGCAATAACACATATGCGCAAAGTTCACTGGT
TTGAAAAATTTAACTGGTTTATCAGCAGTGAGAATTATTTGGTTATCAGT
GGACGAGATGCTCAACAAAATGAGATGATAGTCAAGCGTTATATGTCAAA
AGGAGATTTGTAAGTTATTGCTGTTGTAGATTTGTTTTTCTGACTAATTA
TATGAATTTTGTTAGTGCTATAGTATAGCCTATACATTAGGAAATAATTA
CTACTAACTTTTGTGTTATATTTATTGAAGTCAATGATATAACATTTTAA
TGTATGTAAATTGACTATTGTTAGACTATTAGATGTAGTTCACATCAGTG
ACCATAAATGTTTACATGTATTGATGTATATCAAAATAAGTTGCAACTGA
CAAATTTTGTAGTTCAAGCATTTTGTTATCACTACTTTTCAGTTCTCATG
GATAAATCTTTAGTATGCACTTGTATTAGTTATTCTCAGCAAGTTCCGTC
TTCCTGATAAAATAAATAATTGCAAATAGTATTAAAAGATGCATATATTA
TTTATGCTATTGCTAATATTGCGAGTGTGATGGTGAATTAGGTATGTCCA
TGCAGAACTTCATGGAGCTTCTAGCACCATAATTAAAAACCATAAGCCGG
AAAATCCTGTGCCGCCTCTTACATTAAATCAAGCTGGATGCTTCACTGTA
AGTTAGCTTGCCACGATGCTTCCCTAGCCATTTTCTACTTCTCGCGATTT
GCTTGGTGAATGAAGTAACCTTCATTTTGTTCTTGATTAGGTCTGCCACA
GCCAGGCTTGGGATTCCAAGATTGTGACAAGTGCTTGGTGGGTTTATCCT
CACCAGGTTAGTAAAACTGCTCCTACCGGAGAATATCTTACAGTTGGAAG
TTTCATGATTCGGGGGAAGAAGAATTTTCTTCCTCCACACCCTCTTGTCA
TGGGATTTGGGATGTTATTCCGTTTGGATGAAAGTTCTTTGGGGTCTCAC
TTGAATGAAAGGAGGATAAGGGGTGAAGAGGAGGGATTAAATGAAAAGGA
AGAAAGTGAGCAATTTAAAGAATTGTCAGACTCCGAGTCTGAGGAAAAAG
TTCCAGAGAAGAAGCATGATCCGCCATCTGGAAGTACTCCAGAGTTGACA
AGAGAAGAACCGAAACTTGAAACATTATCTACTGTGGAAACCAGCGCTAC
TTTGTATGACAAGCATACTGGGTCCGAAACTTCTGGAACAACTGTTAATT
CTGTTACCCCGCAACTCGAGGATCTTATAGACAGAGCTCTGGAGCTTGGG
CCTGCTTCTGCATCTGCTAAAACTTATGGATTCCAAGGTTCTCAAGAAGA
AACTGCACAAGAAAATCTTGAAGACGGAAAAAATGCACAAAGAGAAAAGC
CTTATGTCTCCAAAGCCGAGAGGAGAAAGCAGAAGAAAGGCCAGAAAAGT
GATAGCGTTAATGGGTCTGTTGATCATGGAAAAGAACAGGATGTTGAAAA
TAATAGTGATACAAGAAGTGAGTCTGACAAACAGAATCAATTATCAAAAC
CAGGTGGTGGTGGAAAATTGAGCCGTGGGCAGAAGGGTAAACTGAAGAAG
ATGAAGGAAAAGTATGCAGATCAAGATGAGGAGGAAAGGAGAATTCGAAT
GGCTTTACTAGCTGTGAGTACTAAACCTTAACAATTTCTGCATTATAGAT
GTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTTGGT
CCTTACTGTTAATTCATACTCACCTTTTACTTGGCATTTTGTTTTCTTTC
TTGTTATAAAATTGAATAATTGTATATGATGCTGTTTCCCTGAAATATTT
TATAAAATGGGACTGCTCAGCCCTGCTGATATTTTCCAAAGTAGCCCTAT
GAAATTTTTTCTGACATGAACTAATTTGTTTAAACAGGATACATAACATT
TCTGTGCTTATGCATTTTATGCTATATTTGTTATGAAATTTTTTGATTGT
TGATTTGATGCTCACAAGCATACATGTGCATTTTTAAGTGATGTTGGAGC
ATCTCAGAATGCATTATTTTATTATTTCTCTTATCCATTTCACTTTTGTC
AACTTTGTCATTGGAATGCTCTAGACTCTAGTGTTGAGCCACCCAAAAGT
TGCCACAGGGTCCACTTCATATGTTGAATATATTATACGTTTTGAGAGTA
ATATAAACGAGAGATAGCAAGGTTGCCCAAAAGTGGCAGTCACATTGAAC
CTGCCATGTCACTAGGCAATAACTATGGAAACATCTATTGGATTTAATTT
CCTAATGTACTTGCAAATATTCAACAGTTTAGCTTCATGATTTGATTGTC
TGCACTGTTGATTAGAGCACATCATCTTCGTAGTGTACTGCAATTTAGAA
ACTCAAATATGTCAAATACTAACGCCTTTCCATATTAAATTCTGCAGTCT
GCTGGAAAAGTACAAACTAGCGTTGAGCCTAAGCCTCAAGCAGTGGCAGC
TGTGGCAAAACCGGTTACTGGTACGTCTCGTATTTACTGTATTGAATGAA
AATAAGGATGAAAAGAATTGACCGTCTTTCTTGTATTTAGATTAGTCTAT
TAATTTAGATCTTGTCATTTGCAATTTCGCAAAACTACCTATGTCATTTT
GATGCTCCAGTTCTTTGTTAAGAACTTTTCTTGGTGGATTAAACGGATTA
CATATTATTTTTGCAACATTCTCTGTCCAACAAATGTTGCAAATTGCAAT
CTACAAATATTACCACTACTTATTAGTGGGCATAAAGATATGTTTTGAAG
ACGACATCTTGTGTTCTCAGGCCCTGAAGATTCGGCAAAGATATGCTATA
AATGTAAAAAGGCAGGTCATCTGTCTCGCGATTGTCAAGAGCATCCGGAT
GAAGCTGTGCAGAGTCGTGGAAGTACTGGACCCCAGAACAATTCCAACAT
AGTAGATATAGGTGGTAATGAGATGGATAGGATAGCCATGGAAGAGGACG
ATATACACGAGATTGGTGAAGAAGAGAAAGAGAAATTGAATGATGTGGAT
TATTTGACAGGAAATCCATTGCCCACTGACATTCTATTGTACGCTGTGCC
TGTCTGTGGCCCTTATAATGCACTGCAATCATACAAATATAGAGTCAAGA
TAATCCCAGGCACAGCAAAGAGAGGGAAAGGTAATTTGTTATAAATGTTG
TAAATTCTTATAGTATGGCTTCTTCTGGTACAGCATACAGTCAGCTCTAG
TCATAATGGTCGAAACATGACGCATAGTAGCCTATATATTTTTACTTGAG
AAGTTGACATTGTTTACAAACCCTGTTTAATTAGCAACATCCTTGAGCAT
TGTGTCTGTGCAGAGCTGACTAGTTTTTGATAAATGTTTATCGTGTTTCC
ATATTTGCAGCTGCCAAGATGTCTATGAACTTGTTCAGTCACATGCCTGA
TGCGACACAGAGAGAGAAGGAACTGATGAAAGCATGTACAGATCCTGAGC
TTGTTGCTGCAATCATTGGCAATGTCAAAGTGTCTGCGACAGGCCTCAGT
CAGCTGAAGCAGAAAGAAAAGAAGGGAAAAAAAGCTAGCAGACAAAAGAA
TTAATGAGTTCCAAGTCCGGTAAGGTTCAGCTAAAAAAAGATGTCCCGAG
AGTTCTTTAGTTTAGACATCAAAAGAATACTAGGCTCATCCTTGCTGGTC
AGTTGACTTTTGATTGGGTACCTCACTTGTTCCACAGTTGGAAGATATTT
GAATCGAAAATTTTGTGAAGTTGATCACTACTTGAATGGCCTGCTATTAG
TTCTTGTTGAATCTAATTATATATAGAAAAAAAATTGTAGAAAAAAGAAT
TTTTGATATGTGAAATACAACAGATATTGTAAATTTGACAAATTGTTTGT
ATGTACTGATACGGAAAGGTAAATGAGAACAAAGGGTGTTTTTCATGCTT
TGGAATTTCTATTTCA