| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017374248.1, is a part of gene, LOC108204684. |
| The genetic_marker, MK005100 K2544, is located in gene, LOC108204684. |
| The genetic_marker, MK006442 K3886, is located in gene, LOC108204684. |
| The mRNA, XM_017374249.1, is a part of gene, LOC108204684. |
| 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_017374249.1 | XM_017374249.1 | mRNA | DCARv2_Chr1:30681041..30689354 |
| XM_017374248.1 | XM_017374248.1 | mRNA | DCARv2_Chr1:30681041..30689354 |
TATACTGTATGTTGTTAAAACTCTTCTTGTTCTTAAGGTTGTCTAGCTGA
AGGGTTTTGTATGTCTGTCTGTATGTATATGTCACACAAAACAAAGTACT
AAGATATCCGTGTGTGTGCCTTGATTTTAATTCAAAAACACAAGTACAAC
AGAGAGTACTAGAGCTATTGTGTGCTTGAATGAGAAACTTGGATGATGCT
TATCTCAGTTCCAAAACAATGATCAAAGCTCTTGTTTTTGTGATACTATT
ATCCCTTTCATTTAGGTCAATCTCTGCCGTTGATTTTGAAGATGAAGATG
GACTAGTACAATGGCAGATCCTCACTAAATTCAATTTCTCTTCTCAGATC
CGGACCCATCCTCACATCCTGCTCCTGATCACTGTTCCATGTAATTCTTT
CTCCTTTTCTTCTTATATGTGTATGTTTTTACTTTTTGTGTGTGTGTTTG
TGCGTGTGTGTTTTTTTTCCTTCGTTCAGGGAGTGGATAAAGATGAAGGT
ATTGGCCTTTTTGGCTAACATTTTAGCTTTAAATTCAATCCTAATCACTA
AAAATTACAAAATTTGCTGCTGGGTATTTGTAAAAGCTGGAAAGATTTAA
CCTTTATACGGGTTTATCAATTTGAATTGAATAAACTTATTGGCTTGTAC
AGTTAGCAGATTAATGTTTGAGCTCAAAATGCATTCCTATTTTCAGTATT
TGCTAAAGGGTATTTGTAAAAGCTAGAAAGATTTAACCATTATATGGCTA
GTATCACCTGTGCTACGATGTTTGCTAATTTGTGGTTATTTTGGTTATTG
ATGAAAGCGGATGTTAGCATAACGGTACTAATAAGAACAATATAACATAC
ATTTTTGAGTGATTAGCTTACTTCTGAACTAAATATAAAACAGTTCTATA
CCAAGCCATGGTTCTACAGAGTGAGTTAATTTTGCAGAATTATGAAGTTA
ATGTTTTCGAGATGGTTATTTTTTCTTTACACATAAGGTTACTATGCCAT
GGAGGATATAGAAAATCTCTAAAGCGGGGTTCATGTACGAATACAGTACT
ATTATTATCTAGTACAGAAGATAAATAACCTTATAAAGTCCATATTAGTT
TTATATCAACCTTGTCAATCACCATTACATAACAACACATGTCTTCTTGT
CGTCCGGGATCTAGACAAAATGTATGAGATACTAAAGTTCTGTCTGAAGT
TAAATTGCAGGCGTTATTATGTTGGTGGTGCTATATTTTTGGTTTCATGA
TCTTGTATTTATAGGATTAAAAAAGGAAATTGGTACATAGCGTTCAGTAA
TTTGACTAGCAAAGTTTGAATGTAGGTTACCTCTTCATAGCAAGTAGTTA
ACATGGTTCTAATGGCAATCTATTGTGACTTGGTTGATTTTTTTGCTAAA
TATGGTTGTTGGTAGTTTTCTTGATTACTTCGCAATAGTACATAAGTTAA
TGGGTCATTTGTCATATCACATATATAATGTTGGCAGCATATGCTCCATG
ATCCTGATCAGTGCATTATTAATGTGATCAGGGTTCGGCGAATCTCGATC
TCTTATGAGGGATTTGGCTCAAGTGGTTAATAGTAAGCAAAAGAAATTTG
GTACTCTGAAGCTCATGTTTGTACATAGAAATAGTGATAAGGTGCTTGCT
GAAGCTCTTGGCGCTAAAGACGGAATAAAATTTTTGTATTTTCGCCAATC
TTTGTCTTACAAATACCAAGGCCCGCTTCGGGTACAGAACATATTGTCTT
CTGTTTATCATCTTATGTCACTTCCGCCGAAAGATATTCCCCTCAAATTT
TTAACCACGGCCGAGGACTTGAAATCATTTACCGAATCAACTGACAAGGT
ATTACTAGTCATGGAATTCTGCGGATGGACCTCCAGATTACTGACCAAGG
CCAAGAACAGTGTGACTGATAATGGATTTGGTATTTTCTGCTCCATTTAA
AGTTATATGCACTTAACTGCCCACAGGATTAATAGATATAATTACCTTGA
AATTATATGGTCGCAATTGGAACATTAGAGGCCAAGTTTATAGTTAGAGT
TGGGTCAATGAAATTGGCATTGTAGTTTTTTTCACATCTTTGACTATCAT
CGCGTCACATAGCAGCAGATCCGGTTTCTTTTATGTTGATATAAACGTAA
TGTTTGGCTTCTCATATTCATTTTAATAGAACAATGTTATTCTTTTAATA
AAATGATCTAATTTGTGAACTTCTTTCTTTGCTGTTTAAATTTCACTAAA
TTGTTTGAGCACAGTTTGTTATTTGACTAAGTTTCACCTGGATCGGTGGT
TCTTAAGATTACCTACACTGAGGCGCTAAAACCTTGATTATTGCAGAGAG
TATCTTTAACATTGCTAATGGAACATTTTCTCCAGGAGGGAAGAATATGC
AGAAGGTGCAGAACTTTTTTGGTTACTGTAAAAATATAAAACAAATAGAA
ATTTGGCAACTACTATATAATATATTATGATAATAACAGCAGATCGAAAG
CGAACAGAACTGTGGTGCTTACAGTGGAAATCTTTGGACTGGAGAGTTTT
CCGCAAATAATATGAGTCAATTCCCGGGATCTGGGCTGCCTACTGACGGG
GATTTCTGTAGCTCTGAAGAGTTCCATAAGTATGAAACTTTTTTGGTAGA
GTTGTCGGTAATTGCAAAAGAATTTTTCCTGCCACCTGAAAGGATAAGAT
TTGGTTTGGTCCAGGAGAGAGCTCTGCTTTCATTCCTTGGTATCAAATAT
TCTGGTCCATGGTTGGCGATGCTTCACTTTGCAGGATGCCCTAGTTGTTC
AAAGGTTCTGGGAGAAGGTGATGATATCAGACATGCTATAAAGATGCAAG
CTTCACCTGTTTTAGAGGCATGTTGTTCTATTGACCGTTTTACTTGTCAT
CTTCATGTTTGATATTAATGCATTTATGTACTTTATTCCTGAAGAATAAA
GATTAATCACGTGTTAAAAAAATGTATATTTCATATGAACTGCTCTTCGC
ATCTTCTCACCTGAACATTTTTAACAAACCCAAAGTGCACACATTTACTG
TTTAGCTAGATGTAGTGGAAACCTTTATCATTTTGTGAAAAAGCATCATA
AGTCAGCAGTTGCATAAATTGCCACTGTCTGTAGTATTAGACCAGTCTTT
TTCTTTTTACATGCTGACATCATTCTGTTGGAAGTATGGAATTTTGTCAT
CCGCAGCAAGAGTATTATGTTGTGATAAGATGTTCCACTAAATCTATCCA
CACCATACTCATTCTGTTTTGTCATTTTTTGATATTGTATGCAGCTTGAG
GGTGATGCGAATGGTCTTGATCCTCCTATTCCTGCAAACAAGCCATCAAT
AGTTCTTTTTATTGATAGATCATCTGAGTCATTGGATGTTAGGAAAAAGA
GCAGTGAAGCCCTTGGTGTATTCAGAGAATTGGCTCTGCACCATCAAATG
AATGAGGAAACAACTGCAAAGTCTCAAAGAACTTCCATGGGAAATTACCA
ATCGTCACTTAGTACTCTTGGACATCCTAAATTTGATATGTCTCCTTCAT
CTCAAAAGATAACGGAACTGAAAGATAAGATGTCTGTCATGTTATTGGAC
AAGGGAAAACACATTACCATCAATAAAGCTGTTACAGATTTACAAGGTGG
CTCTTTGCAGGAGATACTGACGTATCTTATTCAGCATAAGAAAGAAATCA
AAATAAGCTCACTTGCCAAAAATGCAGGATTTCAACTTTTATCGGATGAT
TTTACTGTAAAAGTTGCAGAAGAGTCACCGGCAGACTTAAATGTGCAGTC
TAATCAGGTTTCGACAGAAGTACAGGAAGAACATCCTGAAGGCAGTGACA
GTGGTCATCTTCGCCAGAATCAGACACCACATATGGCTGGTGGCAGAGTT
GAAAAACCTGAAAATTCTGCAGATGGTAAACAGAAAGAAGTCAAGGAAAC
TATTGTTGATTCAACCAAAGTATTATCTGCAGGTATCGATTCTCGTTATA
ATGTTGACCACATTGCTAATACTGCACACAGTGAGAAAATTCCTCCAAAT
GTTGATCACAATTTCCCAGGTTCTGTGGGGTCCTTTTTCTTTTCTGATGG
TGGATTTCGGCTACTTAAGGCTCTGGCTCCATCGTCATCGATTCCAATAG
TTGTAATAATCGACCCCCTTTCCCACAAGCATTACTTGTTTCCTGAAGAG
GAAGTTTTCGGATATTCTTCACTTAGTAATTTTCTGGAGAGGTTTAATAA
TGGTAGTCTTGTTCCATATAAACACTCCGAGACTTTTACGCGGGCCTCTA
GGGAGTCTCCGAGGCCACCTTTTGTAAATTCAAATTTTCATGCAGTGAAC
TCTGTCCCTCGACTTACCACCAATACATTTTTGGAGTTAGTTGTTGGCAA
TCAATCAGATATGGCAAATTCCAGTAATGCTTGGAAGAAGGATGTTTTAG
TTCTTTTTAGCAATACTTGGTGTGGTTTTTGCCAAAGAATGGAACTTGTT
GTTCGTGAAGTATACTCGGCTTTTAAGGGGTACTCGAGGATGCTGAAGGA
TAAACCTTCATTGATATCTGGTAAGTAGTGAATATTTAGTGTTAAACTGT
TCAAGTAGAGAAGTATTTCGAGTTATGATTTTTTTTCATAAACTAATTGC
TTATATCTCCTTCTCATTTATATACATTATTATCACTATATTTTGCTTTG
ATCTAAAATTCTCTCTTCAATTTGCACAATCCTCGTAGAACGTTTTTTCC
TGGTTTTCTATGAAGGTAACTTACAAGCATGCTAAAAATTTGTTCCCTCT
TAACTTTATTCATCACTAGCTTGCCGTACAATAGAAGAATGAAATATGAT
TTAAGATTTAAGTGCCAAATTTGCCGTTGGCTGTTACCAGATGTCCAGAT
CAATGATAAAGATATTTACTCGTAGCACACACTCAGATTTTTGACAGACT
TATAGAGTTTCTATAAAAACATGACTAGCTACTTATTTAGGATAGATTTA
TTTATTTTTCTTAATCAAGAAAGAGAAGAAAATTTCAACCCTCTCACTGT
CCTGCTCACCTACTCCATAACTCTTGCTCCAAACCTCCATCTGCCAGAAT
GGCAAAGAGCTTTATTGTACTTCTGAACTCTTGCAAGTTTATTCAGTTTG
GTGACTGTTGTATCTCCTTTCTTTTGGTTGGTTTCCCCAACAGGCATAGG
AAGTATCACATTAGTGGTAGTGAACCAGAACAGGTAGCGGTGAAAGTTAA
AGTAGAGATTTCGTTAATTATCCGCTGGTAGATATGAGATGTGGTGCTAA
TGATATTGCATACTATAGCACTTAGCAAATTGTATGTTGATGAACATCTG
CTTCTGCATCCTTGCCTGGTAGTGGGAAAGAATTAGATGAGATTATACAC
ACACACACACACGTTAATTTCGTAGGGTGTATCTGTAACTATATATAGGA
TAAATACATTTAGTACTTATATTTAAATTTTCATTTATCTGAATCGGCGC
ATCACTCGAGTTAACCAGTTCTGCACAATTTTCCTTTATCTTTTATTATA
ACCTTTGACTATATCTTAAACGAGTTTAGAAGTTTGATCTTGTATTTGTA
ATTGCAAAAAACCTAAACTTTCTTAGTTTTATTGATAAATATGTCGAGAG
CTTTGATAATGTACCCAAATTCCCACTATAAAGTTGTATTGTGACGATAC
CCCCCAAACGTCAGGGCTTATCTTTCTACTCTTCCTGTCTCGGAGGCTGA
CGAAGTATGGCACACAAGTTTTCTTTAGGAGGTACCATATGGTGGCTAGA
CATCCTTTAGAGATGTTCATGCAGTCAGACTCTCTGGAACTCGTTGAAGG
ACAGATTAATCTATATATCCCAGCTTCTTTTCTGCTTAAATATGCAACAT
AAGCTTGTAATACAGATCACATGTGTTCTTTAAAATAATTTTAGTTTTTC
AAAGAAATCCAGATTATCCAGAAAAAACAAATCACATATGATTTACTTTT
GTTATTAAAATATGCTGGATTAAAACTGGTGTATATCTTACATTTAAGTT
GTTTAATTTTAGATAAGTATATGTGACCATGATGTCAGTGTACTAAAGTC
TTAACTAAGAAATATGTTATGCTTTCACTTTCTGCATACAATCTTAAAAT
CTGATTTGTACAAAGTGAAGAATGTTTAGAACCATGGAATGAAACAAATG
TCTATTTTTGTGTTTGATGGGTGTTTAGATATGTGGCAGATAATGTGGAA
AACACTAATCTGAAGCTCCCGTTGATTTACCTAATGGATTGTACACTGAA
TGATTGCAGTTTGATCCTGAATTCATCTCTGCAGGTAGACTTGCAACGTC
TAATTTTCATTGTTTTCCTCTGTTAGTATATCTGATGCATTCCAATAGTT
ATGCTAGAAATTAATTGACTCGTTGTATCAACTAGATTTTGTGCAGAATA
TATTCGTTAAATCCTTCAACAAGTAGTGGCTGACTTTTTAAATTACAATT
CAGCTCATATATGTTTTTTGATAAAATGGCATTACATAGAATGCAAATGT
ATTGATCTAAGCGTTACATTGAATGCAAATTTACTAATCTAGAAGTGCCA
AGATATTTATCCGGTACAGAGAGATTGCATTTGTTCGTTTTGGAGTTCCC
ATACTATAAATCATGTCGTTAGATGAATTCAACCAGTGTATGTACTTAAA
ATAGCTCCTTAAACACCGATATCTTTAAATATACTCCAATTTCGCAAGTG
ATTTTGACTCATTTGCACAGTTATAGTCATCATACTAATTCTTGAGCTAC
GTCCTCTTCTCCGCATTCCGTGACTTCATGAGTCCTTTAAACGGAATCTG
GATTGTGTTGCTCTGGCAGAAATGAGCATCAATAAAAATTAAAAAAGTAG
TTACAGAGGAAAATAAGTGTCGTTAAAAGTTGTGGGTATATATTTGACTT
GATGTTGAAGTTTAAGCTTTCCCGCACCCTACCCCAACAGCCTCCTCATG
ACTTGATCCTGCGTCTGCAGTCATATTTTACCTAGTAAAGACATGAAGTG
ACAAGCACATACGGCTGTGTAGGTCTATTGTTGTAATTTAATATTACATT
GTTTCATTGTTACAATGACATCAATACTGTTTTTCACCTTCTCATTTACA
TTCAATGTGCAGAGGGATCTCTATCCTTCTCTGCTGTTATTCCCAGCAGA
AAGGAAAGAAGCTGTTCCTTATGGAGGTGATATCACAGTAACTCAAATTA
TTAATTTTATTGCTGAATATGGAAGTAACTCGGAGAGGCTTTTCGGAGAA
AATGGTAATTGGAACTCTGGTTTAACTTTCTGGCTCGAAAAAGATTTAGC
CTTGTTTTTTATTTAACAAAATAGCGAAATTCTGCAGGTTTTTTATGGAA
TAAAGCCTCACAAAGAGTCAAGTATGGAAATTTGCATAAAGATGTGACAC
AGACTTCAAATATTAAGGATCCTTCTTCATTGACAAATATATACCATGAG
GTTCTACTGAAAGACAGAGCACAGAAAATAGAAGTTAAAGATTATGAAAT
GAGTCCGCAAAGGTACAATCGCCCACATGAAATAGGCACTGACCTGGTTG
CTGGTTCAATACTTGTTGCAAGTGAGAAGCTTGTCAATGTACATCCTTTT
GACGGATCTAAAATTCTCATTGTTAAAGTAAATCAAAGTACGGGATTCCA
AGGTGTAATTATCAACAAGCATATCAGTTGGGACACACTAGGAAAATTAG
ATGAAGGTTTGGAACTACTAAAACGGGCACCTTTATCTCTTGGGGGTCCT
GTGATAATACGAGGAATGCCTCTTGTTTCTCTATCTCGAAAGCTTATGAA
ATATCGTGATCAGACTGCAGAACCTGAGATCCACTTTCTTGATCAGTGGG
AGACGCTTGATGTCATAAAAGCATTACAGGCGGGAGACCGTTCTATTTCA
GACTACTGGTTTTTTATGGGGTACTCAAGTTGGGAATGGAAGCAGCTTTT
CGATGAGATTGCAGAAGGATCCTGGAAAATAAGCAATGGTATGGAACATT
TAGAATGGCCTGAGAGTGATTAGGCTCGCATGTTAAATTATTCAAAGTTT
TGGAGCTTTTTAATCAAGATTTTTAAGACCAGGAAAAGAAGGTAGACTGA
GTATCAAAGTTTTGAGGTTAGCAAATAGCAGCACATGAATCTGATGGGTA
ATCCCAAAAAAAGATCCTACTCCACACATTTTACTTTTGACAGATCAGTG
TAACAAAACATGTACATTAGTGATTTTGTATTCTATCTTACCATTTTTAT
TTTTGACAGCCAA