| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017362722.1, is a part of gene, LOC108195771. |
| The genetic_marker, MK009739 7_29170500, is located in gene, LOC108195771. |
| The genetic_marker, MK009738 7_29170828, is located in gene, LOC108195771. |
| The genetic_marker, MK004107 K1551, is located in gene, LOC108195771. |
| The mRNA, XM_017362721.1, is a part of gene, LOC108195771. |
| 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_017362722.1 | XM_017362722.1 | mRNA | DCARv2_Chr7:29168518..29176756 |
| XM_017362721.1 | XM_017362721.1 | mRNA | DCARv2_Chr7:29168518..29174247 |
GTTTATACAAGTTCTGTTGATCCGCCGTCCGAGTAAACTGAAACTTGCAA
CAACAAAGAGCTTCGTAATAGGTATTAATCTCAGATCTATTTAACTGAAT
TTAATTATACACACATTCATCTGTATCTATATGTTGCTCACATCTCGATG
CTGTTTCTGTTGATTCGTTTTGCTATGTATGTGCTTGTGTATATGAATCT
GTTGATGTTGATTATTGAATTTTGGGATTTGTAATGGTTGTGAATAGTGA
TGATTGATTAGATCTGAGGTTTTGTGATGATATCGTGATGGAATTGAGTT
GATGCTCTGGATTTGTCTCTGTTTTCGTGTGTTTTGTGCTTGTTTGTGTT
TGTGTGGTGTTCGGATTTGTGGATTGGTGGTTTTGTTAGTGGCGAGATGC
GTGATCACGGATAGTGTTTGGTTTTGTGATTGTTTTCGTGTTTGTTTGGA
TGAATGGATCAGGCCGGTGGAAGATTAGTTCTTTTGGTTGGGAGATTTGT
CTGTTTGTATTGTTTTTGGTTGTGTGTATGGACTGTAGATGTTGAATTTT
CTGTTGTTGGTTTGTGTTTTTTAATTGCACGTGTTTGAGTGGTGTGAAGA
TGGAGTTTTGGTGTTTCGGGATTTTATATCGTTGTTGTGGATTGATTGAT
TGGATTGCTGAAAGTGTGTTGATTGATGTACATTGCCTGGATTGTTGGAT
GTGAAATTCTGATTTAATAACAAAGCATAATTAATTATTGTTTTTATTGT
GGTGGAATGCGGATTTCTTGTGAAGCACGGTTAATAATAGTTTTTCTTGT
GCAGACGTTTTTGCGGTCAGGATGGCGACAGTAGGAGCATCGGGATGGTT
GAAGGGAAAAGTCAAAGCTGTTCCATCTGGGGACTCTCTGGTTATAATGG
GGAACACAAAGGCTGAAATTCCTCCCGAAAAGACCATAACCTTGTCATCT
CTTGTTGCTCCAAGATTGGTAATATTATACAGGCTTTAAAGCTTAAATCT
TTATATTACTTTTTAGTTTATGATATAAATGGTATAAGACTATGATATAT
TAACAACACTTGGTTTGCAAGCATTTATTTATCTTCCTCATTATCATTGC
AGGCTCGTAAAAACAGTGATGATGAACCTTTTGCATGGGAGAGCAGAGAG
TTTCTAAGGAAGCTTTGCATAGGACAGGTACTTGGTTATCAGTTACTTGC
TTTTCTTTTTTCAGTTCACTACTCGTATAAGCATTAAACCCTGCTCAATT
TTGGTTCACTAGGAGGTAATTTTTAAAGTGGACTATGAAGTACCAGCCAT
AGGCCGAGAATTTGGTTCTGTTTTTATTGGTGATAAGAATGTTGCGTGTC
TCGTTGTTGCTTCTGGATGGGCAAAGGTCAGATTTTTATTCTTTCTTAGG
TTCTAATAGATGATAATTAATAATGCTTCTAGCTAATACTATTGGTCAAA
TCTTTATTTACAGGTTAGAGAGGTTCGGGAGCAAAGTCAGCAGAAAGCTG
AAGTCAGTCCTTTTGTAGCAGAACTTTTGCGATTAGAAGAGCAAGCCAAA
CAACAAGGTGTTGGTCGCTGGAGCAAGGTTAGTACAATATCTGCATCATA
AAATTGCTAAAGGACTGGTTATTGGCAATGTCATATAGTTTGATTTCATA
TCTATATGTATCTTTATGTATGGGGTTGTGTAAGAATATTCTTAGAATTA
TATTCTGCAAACTTAAAATTTTATGTACTAAAACAGCTGATATATTTGTG
TTATGTGTCCTAGCCTGTTGGTGTTTTCTACATTATTAAGGTGTCTTTGA
ATACAAATTTACAACGCATATGCCTTTTGGTTGTCTCTTTGACTATAAAC
TTTTTTGGACCTTGGCTGTTTAATTCTTTTATTAACAATATACTTCTTCA
TATGCAAAACATTCTGACACAGAAAAATCACTTGTAGGTGCCTGGTGCTT
CTGAGGCAGCCATCAGAAAATTGCCTCCTTCTGCAGTTGGTGATCCTAGT
AACTTGGATGCAATGAGCCTTTTAGCTGCCAATAAAGGTAGGCCCATGGA
AGCTATTGTGGAGCAAGTTCGTGATGGAAGTAGTCTTCGTGTTTTTTTGC
TTCCAGATTTTCAGTTCGTCCAAGTTTTTGTTGCTGGTATTCAGGTAGAA
TCCAATCTTGACCTCAACATTTTTCTAATAGGTGTCATGTTTAAAAGTAA
TGTTCACGTTTATTTCTTTTTTGATATTACAGGCACCCTCTATGGGTAGA
AGGGCTGTGCAGGACCCAATTCCTGAACCTGAAATGACCGCTGCAGCTGA
TGAAAATGGCAATGCTTCTACTAAATCTCGTGGCCCATTAACATCGGCAC
AGAGACTTGCAGCATCACCAGCCTCGTCTAATGAAGTTACCCCAGAATTA
TTTGGGCGGGAAGGGAAACACTTTACAGAGATTCGTGTATTACATAGAGA
TGTGAGTGCTGTTTCAAACCGCCGTTATTTACTGTTGTTTACTTTAATGG
CTCTAATTTCATGATTTAAATTATAGGTCCGCATTGTTCTGGAGGGTGTT
GACAAATTCAGCAACTTGATCGGTTCCATATATTATCCTGATGGTGATGT
TGCGAGGGATTTAGCTATGGAGCTTGTTGAACATGTAAATTTTCGACATA
AAACATACATGATTAAAATGAAGAAACTAATATTACTATTTCGTTTCAAC
ACACTAATTGTATAAAGTCCTTTTAGTTGACTTCAATCTTCTTTTACTGT
CTTTTTTATTGAATTCAGGGCTTAGCTAAATATGTTGAATGGAGTGCTAG
TATGTTGGATGATGAGGCCAAACGGAAACTAAAAAATGCTGAACTTGAAG
CTAAAAAGAGTCGGTTAAGAATGTGGACAAGCTATGTGCCTCCGGTTTCT
AATTCGAAGGCAATTCACGACCAGAATTTTAGTGGAAAGGTTGGTTTTTG
TTTATCCAAGTTCACGTGTAATCATTTGATGTTTACAAAACTTTATCCTT
GTCACCTTTAATTTGATTTTTTGTTTTTTAGGTTATTGAGGTCGTGAGTG
GGGATTGCATTGTTGTAGCAGATGATGCTCTTCCATTTGGCAGTCCATTA
GCTGAGCGAAGAGTAAATCTCTCAAGTATAAGGTGTCCGAGACTAGGCAA
TCCTAGAAAAGATGAAAAAAGCCCCCCTTATGCTCGTGAAGCGAAGGATC
TCTTGCGAACACGTCTAATCGGCCGTCAAGTATGGACATTACTAGTGTTC
ACATCTAAAAGAATCTATTTTGAGTGGCTTTGATTTATTTTGAATAAACA
TTTTTTCAGGTACATGTTTCAATGGAATATTCTAGGAAGGTAAACTTGGC
AGAGGGACCTGGTGCTCCAACTGGAACAACAGATAGGGTAATGGACTTTG
GATCAGTCTTTTTGCCGAAGGATGGCGAGGCTCCACCTAGTGCAGGCAGT
CAGCCGACAGGGATTAATATTGCTGAGTTAATTATTTCTCGCGGTTTTGG
TGAAGTCATTAAACATCGTGATCTTGAGGTAAGATCAAATTACTATGATT
CCCTTCTTGCTGCCGAATCGCGTGCCAAAGCTGGGAGGAAAGGGATGTAT
TCCGGCAAGGATGCTCCAGTGATGCACGTCAATGACTTTATAACGGTAAT
AATAAGACATAATCCATTATTAATGCTTGGAATGATTCATATTATTAACT
TTCCACAATAAAATCTATTGCAGGCTTCATCTAAAAAAGCGAAAGATTTC
TTGCCATTTTTGCAACGGAATAGAAGGATGACAGCTGTTGTGGAATATGT
GTTTAGCGGTCACCGATTTAAATTATATATTCCAAAGGAAACTTGCAGCA
TCGCTTTCTCGATCTCAGGAGTGAGATGCCCAGGACGAGATGAGCCTTAT
TCCAGTGAAGCGATTGCACTAATGAGAAGGAAAATCATGCAGAGGGATGT
TGAGGTAGTGCATAATGTTTTTATGATTATTTATGTCCTAGTTAATGTTC
ATAAATTCTCTTTATAGTCTTTGAATAAATGCTTTCTCTTTTGCAGATTG
AAGTAGAAACTGTTGACAGAACAGGTACTTTTTTGGGATCTTTGTGGGAG
TCAAGATCCAATGTCGCATTGATACTACTCGAAGCTGGTTTGGCCAGGCT
TCAAACCTCTTTTGGTACAGATAGGATACCTGATATCCACCTGCTTGTGC
AGGCTGAGCAGTCTGCTAAGAAGCAGAAATTGAAGGTGAGATTGAGAATT
GTTATCCTAGCACAACTATCCCACTTTCTAATGTTTCTTATAGTTTCTTT
TTCTTCTTGTTGAAGATTTGGGAGAACTATGTTGAAGGAGAAGAAGTTTC
TAATGGCCCAACTTCTGAAAGAAAGAAAGAAGAATTTAAGGTATAAATTT
AATATTTGATCAATTCAGCTAAGTACTTGTCAGATGATCAATAAAGTTGT
GACATAGTTTACTTGTATATACTCTCAGGTAGTGGTTACTGAAGTCCTTG
GCGGTGGAAAGTTTTATGTTCAGCCAGCAGATCAGAAAGTGGCATCCATT
CAGCAGCAGCTTGCTTCTTTGACACTCCAGGAGGCTCCTTTGATCGGTGC
TTTCAATCCAAAGAAAGGCGACCTTGTCCTTGCACAGTTTAGTGCGGATA
ATTCCTGGAACCGAGCAATGGTGAGAGTGACATCATAATACCACACTTTT
TGCTCCTTTTTCTTTCCTTTATCTGCATGCATAGTGCAAAATTATATCTT
TGTTATTTCTATGATGACTTTCTAAAATTTTCCTGTTATCCAATACCTGA
AGATTGTGAATGCCCCTCGAGGTGTCGTTGAATCTCCAAAAGACAAATTT
GAAGTGTTTTACATTGACTATGGAAATCAAGAAATGGTTTCTTTCAGCCA
ATTGCGACCTGTTGATTCTTCCGTGTCTTCGTCACCTGGCCTTGCGCAAC
TGTGCTGTCTTGCTTATGTAAAGGTTCCAAGTTTGGAGGAGGATTATGGG
CAGGAAGCAGCTTTTAGTCTGAGCGAGCACACACTTAGTGGGCCAAAAGA
GTTTAAGGCTGTTGTTGTAGAGAGGGATGCGTCTGGCGGAAAAGTCAAAG
GACAAGGAACTGGTACTGTCCTTATGGTAACTTTGATTGATGAGGAGGCT
AATGAAAGCATAAATTCCCGCATGTTGAAGGTATGTTTTTATCTCCTGTG
GCTAATTAAGAATACAAACATGTAAACTTTTTCTTGTGAAATCCCTATCC
ATGGGATTTTCAATGTGCTTACCTTCTTACAAACTTGTTTCAAAATTATA
TATGGATAGTCAACTGATATTTTTACTTTTTACAATGTATTTACTCTGGG
GGTTTTCCATTCCACAGCTAAATTATTAAGCTATGGCATCTCTTCTACTT
TGTATTGCATATTGTAAGGGAAGACCTCCCTTCTGTATGTGGACATTCTC
TTCCAATAATTGACATGTAACATTTTGCAGGAAGGACTTGCTAGGTTGGA
GAAGCGGAGGAGATGGGAGCCGGTCGAAAGAAAACAGGTGATTGACGAAT
TAGAAAAAGACCAAGAAGAAGCTCGTACTAAGAGGCTGGGCATGTGGGAG
TATGGAGATATAATGTCAGATGACGAGGACAGTGCTCCAGTAAAGAAACC
CAGTGGTGGCAGGAGGTGAATACATGGTTTTCTAGTAACCTAAATAATTT
AGGTGAGAACAACATAGGATGAAAAGTGCTACAAGAAANAAGGATGGCGA
GGCTCCACCTAGTGCAGGCAGTCAGCCGACAGGGATTAATATTGCTGAGT
TAATTATTTCTCGCGGTTTTGGTGAAGTCATTAAACATCGTGATCTTGAG
GTAAGATCAAATTACTATGATTCCCTTCTTGCTGCCGAATCGCGTGCCAA
AGCTGGGAGGAAAGGGATGTATTCCGGCAAGGATGCTCCAGTGATGCACG
TCAATGACTTTATAACGGTAATAATAAGACATAATCCATTATTAATGCTT
GGAATGATTCATATTATTAACTTTCCACAATAAAATCTATTGCAGGCTTC
ATCTAAAAAAGCGAAAGATTTCTTGCCATTTTTGCAACGGAATAGAAGGA
TGACAGCTGTTGTGGAATATGTGTTTAGCGGTCACCGATTTAAATTATAT
ATTCCAAAGGAAACTTGCAGCATCGCTTTCTCGATCTCAGGAGTGAGATG
CCCAGGACGAGATGAGCCTTATTCCAGTGAAGCGATTGCACTAATGAGAA
GGAAAATCATGCAGAGGGATGTTGAGGTAGTGCATAATGTTTTTATGATT
ATTTATGTCCTAGTTAATGTTCATAAATTCTCTTTATAGTCTTTGAATAA
ATGCTTTCTCTTTTGCAGATTGAAGTAGAAACTGTTGACAGAACAGGTAC
TTTTTTGGGATCTTTGTGGGAGTCAAGATCCAATGTCGCATTGATACTAC
TCGAAGCTGGTTTGGCCAGGCTTCAAACCTCTTTTGGTACAGATAGGATA
CCTGATATCCACCTGCTTGTGCAGGCTGAGCAGTCTGCTAAGAAGCAGAA
ATTGAAGGTGAGATTGAGAATTGTTATCCTAGCACAACTATCCCACTTTC
TAATGTTTCTTATAGTTTCTTTTTCTTCTTGTTGAAGATTTGGGAGAACT
ATGTTGAAGGAGAAGAAGTTTCTAATGGCCCAACTTCTGAAAGAAAGAAA
GAAGAATTTAAGGTATAAATTTAATATTTGATCAATTCAGCTAAGTACTT
GTCAGATGATCAATAAAGTTGTGACATAGTTTACTTGTATATACTCTCAG
GTAGTGGTTACTGAAGTCCTTGGCGGTGGAAAGTTTTATGTTCAGCCAGC
AGATCAGAAAGTGGCATCCATTCAGCAGCAGCTTGCTTCTTTGACACTCC
AGGAGGCTCCTTTGATCGGTGCTTTCAATCCAAAGAAAGGCGACCTTGTC
CTTGCACAGTTTAGTGCGGATAATTCCTGGAACCGAGCAATGGTGAGAGT
GACATCATAATACCACACTTTTTGCTCCTTTTTCTTTCCTTTATCTGCAT
GCATAGTGCAAAATTATATCTTTGTTATTTCTATGATGACTTTCTAAAAT
TTTCCTGTTATCCAATACCTGAAGATTGTGAATGCCCCTCGAGGTGTCGT
TGAATCTCCAAAAGACAAATTTGAAGTGTTTTACATTGACTATGGAAATC
AAGAAATGGTTTCTTTCAGCCAATTGCGACCTGTTGATTCTTCCGTGTCT
TCGTCACCTGGCCTTGCGCAACTGTGCTGTCTTGCTTATGTAAAGGTTCC
AAGTTTGGAGGAGGATTATGGGCAGGAAGCAGCTTTTAGTCTGAGCGAGC
ACACACTTAGTGGGCCAAAAGAGTTTAAGGCTGTTGTTGTAGAGAGGGAT
GCGTCTGGCGGAAAAGTCAAAGGACAAGGAACTGGTACTGTCCTTATGGT
AACTTTGATTGATGAGGAGGCTAATGAAAGCATAAATTCCCGCATGTTGA
AGGTATGTTTTTATCTCCTGTGGCTAATTAAGAATACAAACATGTAAACT
TTTTCTTGTGAAATCCCTATCCATGGGATTTTCAATGTGCTTACCTTCTT
ACAAACTTGTTTCAAAATTATATATGGATAGTCAACTGATATTTTTACTT
TTTACAATGTATTTACTCTGGGGGTTTTCCATTCCACAGCTAAATTATTA
AGCTATGGCATCTCTTCTACTTTGTATTGCATATTGTAAGGGAAGACCTC
CCTTCTGTATGTGGACATTCTCTTCCAATAATTGACATGTAACATTTTGC
AGGAAGGACTTGCTAGGTTGGAGAAGCGGAGGAGATGGGAGCCGGTCGAA
AGAAAACAGGTGATTGACGAATTAGAAAAAGACCAAGAAGAAGCTCGTAC
TAAGAGGCTGGGCATGTGGGAGTATGGAGATATAATGTCAGATGACGAGG
ACAGTGCTCCAGTAAAGAAACCCAGTGGTGGCAGGAGGTGAATACATGGT
TTTCTAGTAACCTAAATAATTTAGGTGAGAACAACATAGGATGAAAAGTG
CTACAAGAAAGAGAATCAAGACGGGATATTTTGTTTAAATTTGTTTTTTT
TTTTTGGAAAAATGTTATTAGAAACTTAGAAAGCAGTTTTGGATTTTGTT
TTGCTTATGTGTTAAATACATACAATTGCCCCTAATAAGGAGACCTCCAT
CAATTTCTATGAAGTAAGGTATGTGACTTTATATCCTA