| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017371887.1, is a part of gene, LOC108203130. |
| The genetic_marker, MK019065 9_3905397, is located in gene, LOC108203130. |
| The genetic_marker, MK019067 9_3905836, is located in gene, LOC108203130. |
| The genetic_marker, MK002789 K0233, is located in gene, LOC108203130. |
| The mRNA, XM_017371886.1, is a part of gene, LOC108203130. |
| 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_017371886.1 | XM_017371886.1 | mRNA | DCARv2_Chr9:3902226..3911473 |
| XM_017371887.1 | XM_017371887.1 | mRNA | DCARv2_Chr9:3902226..3911329 |
TAACAAACTAATAAAATAATGGCAATGAGATAAATGAGAATGGCGGGTTT
TGCCTCAATTCCAAACGACCCCACATCATCATCGCCGTTGAGATTCAATA
GAGTGGGTCCCACTCCTCTCCACCTCATCACCACCTCCGCCGGTCTCCGC
CTCGGCGATGTTCTCCGGCGGCGATTCACCGCCGACGCTACTCATCTAGG
CCTGGTTCTCAACTCATCTATTGAGGTAATTATGCTTCAAACTACTCGCT
CCGATGAAATACGATTATCAAAACTTCGATGAATTAGTAAAATCCGTTCA
ATTTAGAAGCGTCTGATATAATTAATTTATTCCTGTTTAATTTTAACTTC
GATAAACTAATAATTTTGATAAATTTCTAAAATTATCTCAACTTAAGGTT
ACTATTGAATTTTGTTTAGTGTTAAGCTTTATAAAAGACTCGGATCAGTG
TTGTTTTGTTAAAAGGCGCAATATGTTAAGAAGTGAAGGATCTAATTTTG
AAGCACGAGCTGCTGTTAATCGCTTACTATTTTAGCGAAAATTAAGATCG
TAGATTTTGACAAAAATATATTACTTATTAGATTTATAACTTTAACTTTC
AAACGTAGCAGAGCATGTCTAATGTAAAATAAATGTAAAGTAATGATCAA
TAACAAAGCATCAATCCACGATGTTCAACAATTCAAAAGTTCGGAGTTGT
TTTGTTCAATTTCTGGTAACATTTTTGTGTTCGAGCTGTTATTTTAATCT
GTTAATAGACGAGATGAGATATGTTACAGATTTGTGATGTCTTGAATGTT
GTGTCAATGTGGAATGGTTTACAACGATTTGTAGGAGCAGGTGTTGGTAA
TAATCTGAATGTTGTTATTTGCTTAGAGATGCTTGACTGTTGGTGTGTGA
ACTTATTATCTTCTATTGATTTGAACTATAAAATTGTTGACCGTTAACCT
ATATTACATATTATTGTTACTCTAAATTTATGTTTCTGCATGACTTGTTG
ACTCTTTACAACTAGTCGGGCGACTTGTTGACTCGTAGATTCCAAGGAAC
CAGGAACTAAGGCTCGAATCGGCTCCATGATAACCATGTTGTACCTGGAA
GTAGGTTTAAAAGATTGCATTACACTAATATTGTGGAAAAATGGGTCATT
ATATCATGAACTCAACTAAGTGTTTGCGAACTAGTTAGCATTGGCCACAT
GAATCCTGGGACATGTTACATGTGATGACTTGTGTATATCCAATACCGTT
CAACAAGTAATATTCAGTTAACCTTCGGTAGAGAAAATTAAATTGATAAG
AGAAGGATAGATATAGAGGTTGCATGATTAGCAGAAATCTGTAGACTATA
TGAAATTAAAAATATTTATGAAGCCTTTTACAGTTGGTGGAAATTGCTCA
GTCCTTTATATTTTTATTTACTTGAATCATGCGCTGAAAATAAATAGTAG
TAGAAAACATTCCCATAGGCATACCCCTATTAGGTCCTAGGCTTGTCAAT
GTAATGAACGTATTAAATATTTTCAAATTTAATGACTAAAGATTATAAAG
TGACAACTAAATGACTGTTTTTAATCAGTATTACCAATACTTTTTATACA
TTCAATAGAAAAAACACAGTATTTATTTAAAAAAATAAAAGCGGAACACA
TGGGTTATATGCTTGTATGAATAATGTAAGATGAAGAACAAGTAAAGCGT
TTACTATGCACAATTAATATAGGCAAAAGTGCACATCTTTTATAGATGTG
TCTATCTCAAAGAAGGAAAGCTAGTTTTACTAATTTTAAACAACTGCAAT
TTAGCTGTCACATTTTGTTCATTTACTAATCAAGTGATATAAAATACCAG
GCTTGGAATGCAAAATGTAACTTTCATTTGTCTTTATATTTTGGGGATTT
CTATTCCTTTTCTTAAACATGATATATTGTCTTGCTTTGTGTGCCTGTGT
TGAAGGAAGTTTTGCATAGAAGAATCCACCACTTCGATGGGTATATATTT
CTTCAACGGTCATACGATGCTTGGGCAGCCAAATGGTCATCTACCTTACT
ATTTTTTGGTGGAGAGGGGAGTAAAAACAACTATTTACGTGGTAGAAATT
CACAAATGAATTCATCCAGAAAAGACGCATTTAGTAGAAGAGGACTAACC
ACTGTGCTCATTGCAGTTAATGTCGTGTGAGTATTAAGTTTTTTCTTGCA
TCGTTAATATAGTTCGAATTTCCCTTTTCCTCGGCCATTCCCAAGTTATC
CTCTTATTTTGGTGCCATTATCTCAATTATGTTGGCATTCATGTTACCCC
ATTATTACACATTCTAAATTTTCAAATAGTTTTTGTTACATATTGCAGTT
GCTACTCCACCTAGGTAACTAGTTTATGCATGCAGGGTTTACCTTGCACA
GATGGCAACACAAGGGAAGCTAATGCTCTGGGGTGCAAAGGTCTTGCTTG
CATAGACATCATCATATCAAACTGTAAACATATATTTATACCCTTTTATT
GCTTGATTCACAAATTCCTAACTGTATCTATATTACATACACTTGCAGAT
TAATAGTCTAATAGACAGAGGACAACTATGGAGACTTGTGTCATCTTCAT
TTTTGCATGCAAATATTGGACATCTCCTGGTCTGGTGTTTACGCGCATAA
ATTAATTACGGAAACTATTTTGAAGTGTGAATGTTAACATGGGTTTTGAT
TTTTGTAGATCAACTGTTATTCATTGAACTCTATTGGTCCTACTGTGGAG
AAATATAGTGGTCCTGGAAGATATATGGCAATTTATTTCATCTCTGCAGT
TGCAGGTAACTATCAATACTTAAATTATGTTTTGTTTCGCCTACGTACAT
TGTATGTTTTGTATTACCTGATGAAGTTGTTACTATGGACTAGCTTCAAC
AATGAGTTATTGGTTCTGTAAAGCACCAGCAGTTGGTGCATCTGGAGCAA
TATTTGGATTAGTGAGTTGTCTTTACCCCTACAGTTTAACTTTCTGTGAT
TTATCATGCTTTTAAATAGAGTTAAATGCATTTTTCACCCTTTGGTTTTA
ACTAAATGCACTTTACACCCAATAGTTTTACAATAAGCACTTTGTATCAC
TTAACTTCAAAACCTGCCACACTTTGGACACTCTAAACACTTTTTTCGTC
ATACTTTGACCGTTACCATTAGTCAATCTAGGGTATATTTGATATTTCTC
ATTAAAAAAAGATTTATTTACATTTTGCATCCCTTAGATTTCAGTTAAAT
GCATTATGAACCAATAGTTTTGCTTATATAATCATTAGCCATTTCCCGTA
TTAATATTGATGAGGAGCTTTTACAATTTGACTAATATATTAATCGCATC
CAAAATTATATTACAATTTAACGTGAGTAACAAATACAAGAATTGATTGT
TTATACGCATCGAGTAGTGTCAATTAATTAATGTCACATACAATTAATTA
ATACAGTTTTGTCATAAAAATTTATATAAAGATAAGATATGTTACTACCA
TCATCAACTTTATTAACATATAATAATAAAGATGATATAATTTTATAATT
TTTTTTGACATATGCGCACTAATTAATTTTATGTGATATTAATTAATTTT
ATGTGACACTAATTAATTTTATGTGACATTAATTAATTGACACTAAGTTC
ATATAAACAATCGGTTTTTGTACTTGTTACTCACATTAAATTATATAATT
TTTTTGAATGCAATTAAGATGCTAGTCAAATTGTAAAAACAATACATCAT
TAATATTATTAGAGAAAATGATTAATGATTATATAAGCAAAACTACCGTG
TCCATAATTCATTTAGTCAAAACCTAAGGGATGCAAAATGTAAATATTTT
TTTTTCAAAATGAAATACCTTAAATACCGTCGGTTGCCTAACGGTAACGG
TCAAAATATGACGGAAAAATGTCTAAAGGGTTCAAAGTGTGACGGGTTTT
GAAATTAAGGGATGTAAAGTGTTTATCTTAAAAATATTGAGTGCAAAGTG
CATTTTTCTAAAACCAAAGGGGTGCAAAATACATTTAACTCTTTTAAATA
TTATGCATGGACGGGAATCGTATTTATCATAATATGTCATAGTGGGATTC
ATTTAAGAGCATCTCAGTTGCATCACTCCAAGTCTGATGAAGAATATGGA
ATGGAATGCTTCGGATTTGTATCTGACATACTGGTAGACCTATAAAATAT
GCTCAGGAAGAAAGGGAGACATATAAATATATAGAGTTTAAATCCCCCCG
CCCCTCTACTCTGGATGCTAATTGAAGGCATTTCCTCTTTCTAATTGTAT
GTGTTCTACTTGTGATCCCTTTAATCAGGTGGGATCTTATGCTATGTTTA
TATTCCGGCATAGGTACCTAAGTAATGAAAGTGGTGAAGGTTTGCAGCAC
GTTGCAAGGATCATTATGTTAAATGCGGTATATCCATCAGTCCTCTCAAC
TTCCATGGAAATGAATATTTCATCTTTTATCGTATATTAATATCAATTTG
GACTGATATACTGTCAATATCATCAATAATATGACATAATTATGTCATGA
GTATACGACATTATCATTGTACTAGCTACTGTAGGAAGAACTGCCACCAA
GTTTCATATTACCTATAGATTGAGGCTCTTGCCTCTCCTTAATATGCACT
AGACATAATAATATATACACTTTTCAGTTCTCTGCCTATATCTGACTCTC
CTCTCTACTATGATCCCTTCTATTACTTACTGTATTTCTCATATAATCTG
AGATGGTATCATACTAGGAGTAGAGAAGAGGAGAATATTTCTGTTAAAGC
TTTGAGTTTTCCCAAAAAACTCAAGCTGCCCAAGTGCCCCGTTAGGTTCT
TTGTATTTCAGCCCCAAAACAAATCAAAGTTGTAAACCAATACATATCAG
CGTTACACCTTTTTTTCAGTTCTCAAAAAATCCACCTGAGACAAAGTTGG
TTGTCTCTCTTATGTGAAAATCTCAGCGTGTTTCGAATTCTTGTCCCAGT
AACAGCTGAAGTAGTATGCTATATGTCTGCATAGTGCATATATACACGTA
TACAGTTTACTATGTCTTATGTCGGGAGATTAAGATTTCAATTACTAATT
ATTTGTAGTGAAGGTGAAACCAAGACCGCTAGAAAGCCGTTTTTTTTGCT
ATACAACTCTATCATAGATGGGTGAAAACCGTAAAGAAGAAAAACCAGTG
AGCTTTATTGCTTGGCTGGATTCAGAAATTTAGCCCCGATCTGGTCTGTG
GTCACAGAAGGGGGAGTTGGACAGCCTGTGTTAAATGGGCTAGGCTGTTC
TAACGATGAAAAAGATTCAAAAGGAAGTCAGCTTCCTCGTTAAAAATTTG
GCGGGAGTTATTATGAAATATGAAGTGAATATATATATGTGGATCCCCTC
GAAAAATGTTGAATAGTTACTTTCTCAAGGGAGAATTCTGTTGGGATCTT
TGGTATAAGCATATCAAGTCTTCCTGGTTATAGATTTAATTGGGTAGAAT
GAAAATAGAGGGTTTGTTGATATTATGAAATTCCACCAATCTATCGTGTT
GCTGCAAATTAAATAGCTCAGAGGGCTAAGATCCACTGAAGTTATCATGG
GACGGTACTTGTCTAGGCGAGTTACAACCTCCTTCATCAAAACGCATCTA
AAGCAGCAGAACTAGTACTCCCTCTGTTTTAAAATATAGGTCGTTTGACT
TTTTGGCACACACTTCTAAGTGCCTTGACCGCATAGATAAAATCATTATT
TTTTTAAAATTTTCTTTTTTGAAAAAAAGAAAATTTTAAAAATAATAATC
ATAACTAAGCGGTCAAAAGACTTAGAAGTGTGTGCAAAAAAGTCAAGCGA
CCTATATTTCAAAACAGAGGGAGTAGTATATAACAGATATACACACAGTT
CCCGCCACGACTGCAAAGCAGCAGAATTAGTAGTATATATACAGATATAT
GCACACTGTTCACTGCCATAAATGACAAAGCAGCAGAAGTAGTGGTATCA
TGTATGTATATCCACACAGTTCAGTGCTATATCTTGCATCAATTTATCCA
GTGCTGACAGCAGCACCTCCTTGTTAATTCATTGAAATCTAGTGATCACA
AAGTCGAATCTCAGTATCTTCAACGGATTTTCAGTTGAACTGATTGGCCG
TAATGCTGACAGCAGCACCTTCATTTGACTTTGACACGAGCTAAAATGTA
AAGTACGGTCACAAAGTTGAGTCCCAGTATCCCCAAAATTCTCACATCTT
GTTCCCAAGATATGTTTTGTTGGACGCTTAGGTTACGCCCAATTTCCTAG
TGTTCCACTCTTCAATATCGATACAGGTCTTCCATCCCAAGATGGCATTT
CAAGTGAGGGGTGTGTATCAATAATATGACATAATCAAGCTCATGTCATC
AAGACGACAGATCATTTTACTAGCTACTGTAGCAAGAGTAGCCACCAAGT
TTCATATTTCCTATATACTGAGGCTCTTGCCTCCCTTGTAACGTTCAGTA
GACATAATAATGTATACACTTTTCAGTTCTCTGCCTATATTTTTCACTCC
TCTACTATGATTCCTCCTAATACTTTCTGCAATTCTCATATATACTCTGA
GATATAAATGTCTGAACAACTGTTGTGCAGGTTATTGGGCTCATGTCAAA
GGGAATCGACAATTGGGGACATGTAAGTATGGGAACAGAATCCCTTTTCC
TTTCCTGATTGGTTTTATTTCAATCATATATATCAGTAGACTTAACCTAA
TTTGTCTCTTTTTTAGATATAGGTCATGCCATGTATTTTGTTGCATTTGC
TACTGAAAGTTAAGGGTCCTGGTCCCCAGCATATGATTGCTGGGGTGCCA
GTAACTAACACACAGCACCTGCACCGTTGGATCACTTCACGGATGGCCCA
GATTTAAAAAATTTCTCGCACGTACAGCGCTTAAAAACCGTTGTACGTCC
AGCGTACAACGCTTTTTAACCGCTACGTCCAGTGTACAGCGCTTACAACC
GCTGTATGTATAAATTTTTTTACACGTACAACGCTTAAAAAGCGCTGTAA
GCATAGAACGATATAAAAAAAATATTATGAGATTATTAAAGAGGCAGGAT
GGTTTTGGTCTTATAATATCACCTCCTGGAACATTTTCCAGCCAGCTCCA
GATCCCCACTGGAAATATGAATGTTACAAGAAGATAAATCAATGTAGGAG
ACCCAATTACCGTGCAATAGAACTTATTAGATGAGGGGATATAAAGCAAT
TATCATTAGCTGAAAGATACGATCATAGTTCAATATTTAATGCTCTTTTA
TACCCCAAGACCTTGATAATCATTTATTGTTTTCAACTGCACAATATGAA
ATGTTACTTATATTTGCATTCATTCTCTAAAGAACTCCCTCCAGAAGGAA
AATCAATGAAAATTGGTTTTTGGCCATAGCTCAAATTGCAAACAAAATGC
CTAGAAGTTATAAAAAGTAGCCAACTACTAATTTTAGCAAACCTAAAGAT
TATGTGAGTTACGATGAAGGGTTATTCTTTTGTTCAAAGTGGACTGTAAA
TAATGCCCAGTGGATGCTTCTAAGGTAAACAAGAATGTCACCTCACGAAG
GGAAGAGAAACACATAAAAGCAAAAGAAAGGGAGAGAACGAGAGCTAGTG
CATCACTTCCCCTTAAATAGATGACCCAGAGTCCCAGACGGCCAGACTAC
TGTTTATTAGAAAGCTTACGAAAGAGTATTCCGTCGAAAAGGTCAGATGT
AAGAACGTAGCTAAGGAGTATGCCATATATACAGCCAGCGATAACTTTGA
GAAATAGTTTTCTTTTTAGCATGCTTATTATATCTGCTATAGGACACGCC
ATAATAACAACAGAAGCAGCAGCAGCAAGCACATAATAACCTCATAATAA
TAAAAAAAATTACATGTTTAACCGCTGTACGCTAGAGGTACAGCGGCTAC
AGTGGTTTATAAGCACTCTACATGCGGGAAAATTTTAAATCGGGACCGTC
CGTGAAGTGATCCAACGGTGCAGGTGCTGTGGGTTGGTTACTGGCTCCCC
AGCAATCATATGCTGGGGACCAGGAACCTCATAAACAATCAAGTCCTTGT
TTGTATAATTCAAGTCACTAAATGGTAGATGGGAGTTTTGGTCAGTAACC
AAATATTATTGCATCTATAACCTAAAAGTAAAAGTTTTTGTCAACTCATT
GAACCACAAGTCGACCACGAAGCTTATCACTGAACTACATATAAAGCATA
TCAGTGAACTATATTTGATTTTAAAATATGCATTTTCCATCTATATTGAC
TAACCTCAAACTAAATGTCATTAAGTATTAAACAGAAGCTGTTAGTACAT
GTCATTATTTCTGATTTTCTCAAGATCCATATGTAGCTGTCAAGTCAGGA
TCTGTGTTCTTTACTTGTATTTTAGGGCTATGTTTTATACTCTTATATAA
GGTTATGTGTTGGATGCTTAATGACTGCTAAGCTTTTGTAAATATGCAAC
AAGTAAACCAGAATTTTAATGAGCTTAAATTTTAGAATTATATGAATTTG
TGGAAAGTATTCGTGCTTGAGTGAGTTATGCAACTTTTAAGGTGCAAGTG
GTTCATATATAGTTTAGTGGCGAAAAGTAGCCTTTACGTTTTAATGAATG
TATATTTCAAGGTGTTGCCTGATGGAAAGGAGTTTAAGCATTTTCTAATA
AGCTGACATCTTAGATTAGTTCTATATAGTCGTAATATTCTTTCATTGTG
CCTTACCTTTCTAACCCAAATTTAATTAATTTAAACATGATACTTCTAGT
TCGGAGGCTTCATAGGTGGAGTTGGAGCATCATGGCTTCTTGGTCCGGCA
TGGGAGTACAAAATGCTTACCAATGATAAGAGACGAGCTTTTGTCGACAA
GGCACCGATTTTTTCCCTTATCAAGCCTAAGAGGAGGCCTTCATAGATAA
ATGTCTGTGTAGAGTACTCTCATCTCCCACAGACACGCGCGCGTCATAAA
CTGTACAAACCCGGAAGGTGAAATCTGCATGTTTCTTAACTGATCACCAG
TGATTTTCTTGTCGCAACTCCAGGAAAAATTTCGCCAATCCAATAGGAAT
TACTTGTAACTGATTGTAAACTTGCGTCAAGGAATACCCAAAATCAGTAT
GACATATATTGTATATGCTTCTTTTGCTTAATATTTTTTTAGTGTTTGTT
ATGTAAATTTCACTTTTTATGCCAAGTTAAATTAATTTCTTAGGTTC