| NCBI Gene |  |
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| Relationships |
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| The mRNA, XM_017387372.1, is a part of gene, LOC108215045. |
| The genetic_marker, MK004859 K2303, is located in gene, LOC108215045. |
| The mRNA, XM_017387371.1, is a part of gene, LOC108215045. |
| 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_017387372.1 | XM_017387372.1 | mRNA | DCARv2_Chr3:45124616..45131182 |
| XM_017387371.1 | XM_017387371.1 | mRNA | DCARv2_Chr3:45124616..45131182 |
GAAGAGAAAAACAAGAGAAGATAATATACGCTTATATACGATAAAGTATA
CGTATACTCGTGTGTATGTATATGTATGTGTATATTCACATAGTCAGAGT
CGACCAGTCTTCTCTCTCTCATCACTTTTATCGTCACAATCATTGCCTTT
CTTCTAGGGTTTTCGATTCATCGTTTCGTTTTGCAGAGGTGATTCTCAAG
CTCTCTCCTTTTTATTGCTTATATGTATCTGTATGTTGTGTATATCGATT
TGTAGGGGTTAAATTTGTGGTTTTGATCAGTTTTTTGAGTTGGGTGTTTA
TTAAATTGGTGATTCTTTGATGGGTGTTTTTGATTTTTGAGTGTCTTGGT
GTCTGTGGATTGTGGGTCGTTTTTGTGGGCGTTTTGTGTTCTTGAAATTT
TGCTTTTTGATGGATTTTGTGAAAAATCTTGGCTTTATTTGTTTGTGGTG
AATTTTTTGGATCTGGGTTGGTTTTGGAGTTGTGTAATTATCAGTTTGGT
GATTGATTTTACATGGGTTTTGTTAATTGAGCTGATTGGAATTGATGTTT
GGTGATTATGAGCTAATGATGCTTTTGTTATTGGAAAGATTGAAATTTTA
CTGGCTTAATCAGTCAATCACTGATTTTTGTGATTGGGGTCTATAGAAAG
TATTGTGTTGTCTTTGCTGGATATACAAATTTGGGTTTGATTGATGTTTT
GCTGTCTGTTTGTTTCGGGGATAGCAAGACTGTTTCTACTGTGGTTCAAT
GGAAATTTATGAGGCAATTGAGGTTGTTTCTGTGTAGGCTTTTACATGAT
TGCCAGCTCTGTGTTATTGGTTGTAACTTGATGGTTTGTGTAGTTGTGGT
TTTAAGTGGTCTACCTGTGTAAACCCTTTGTTAGTTGCGGGTTTAAATTC
TCATGACTTTTACATGTGAATGTTTCTGGACTATCCCGAATTAGAAACTT
AACTTTTACATGCAAATTGTTTAAATTTGCTGGCGTCTGCACTTCGGTTG
CTGGGCTGACGTGTTAAATATTTGGACCGAATAGGTTAGGGGTGGATTTT
AATACTTGAGGTGTAAATCATTTGTCTTTTAGTTCAGTTTTTGTTGTCGT
TATTTTGAAGGATGGAAAATAAGTTTCAAGTATTAGGAATGTATTCATCA
AAGCTGTATTTCCTGGATCCTCAATTATGATTTATCTTGTTGCTTTTCGC
TAAACATTGTACTGTATTTACCCATGCCTCTTAGAGAATGATAAAGCAAG
TCCTGTTGACCTCGTTGTCCAGATGTGCTTGCTATGATGTTTAGAACATT
TCGTTTTCTTTTCCGATATCAGATCCTTTCCAACCGCCTTAAGTGGCGGG
GTGGGCAGTACCGCTCAGATTGCAGCCAGCTGTCATTGAGCCCTTGAACT
TGTAAAAGTTTACTTAGCGGCGAGTGTTCTTTTAGCATAAGTATATTTTT
TTTGGACAGTTAATAGGTCAGTGTCACGTGCATTCTTTATTACTAGATGT
TTTGACTCTGATGACTGCATATCGAAACTTAATTCTTTCAAATTTACCTT
AATGTGAACTTGTTGACAGCTGAGTCTTACTCTCTTAGTAGACTGCTGTA
TTGATATATGTTATGCTGGCATTTCCTATCTGCCGTTCTTAGCTCAGCTT
TACTTTCATTTTTATATTTACCATAACAAATATGGCAGTTGCTTTATTGT
TTTTGTTTTTGTGCCCTTTCTTATGATTGAAGATATTTATTTCCAGGAAT
GGAAGAGGACAAGAAATCCGAAAACCATTTGACATCTGCCGCAGCTTTTG
TGGAGGGCGGAATTCAAGATGCTTGTGATGATGCTTGCAGCATATGCCTC
GAAGTATTCAGCGAAAGTGAACCTTCAACGGTACATTATCGAGACTAGAA
TTTTATGGTTAAGGTTTTTTTTTGTTAGCAATTGATATATCAATTATGAT
ATGCAGGTTACTGCATGCAAGCATGAGTTCCATCTTCAGTGCATTCTCGA
GTGGTACGTTAATTTAAGCTGAATCAAGACAAGAAAAATGCTATAAAGCA
TTAAACGAGTCCTTTTACTGTTAACTATTGAATTAAAGATGGTGTAATTC
ACCTTTTGGAGTTGTGATGAGATGTTAAATAGTTTGACTGCTTTCAACTA
ACGAGGGAAAATATGCAGGAAATATCATATCAGTTTTTCGTCTATTGCAA
ACTTGATGTTGGTTTTTTAACCTTTTGAATACACGCTATCGTTTCATCTT
AGGTTAAAGGGCATTGTAGAAGCAAATGTTTCTTTGTCATCCTCTACATG
GTTCAATTAGAATGTGGAAAAAGTTCTTTGAATTCAATTGTGATATTTCA
TTAAGAATAAGGCATGCAGTATTTTAAATATACTAAATATTTTAATATTT
TCAATGTATTACAATTGTGCTCGTCGAGAGCAAGTGCACATATAAACCAA
GTTTGAGACTTGTTGGGGTGGCATGTGATTGTTTTGCGTGTGCATTCTTT
CAGCTCTATAGGGTAGTTCACTTGGTTATATCAAGAGCTTTCTTTTATTT
GCTGGTCTATCTTTCATTGGTTGCTTTTAGATTTCATTTTATCTTTCTTT
GAATTATACAATATGATTTTGTTATGTGTTGATGATCAGCGGAATATAAG
ACATTAATGAAAAAACAATGACTTGATAAAACAGAAGATTTGATTCATCT
TTCTTTTGCATGTTTTGTAGGTGTCAGAGAAGTTCTCAGTGCCCAATGTG
TTGGCAAGCTATAAGTCTGAAGGATCCGAACAGGTTCTTTTGCAATCTAG
ATCTTTCATTTATTATCCTTGCTGCTCTTTTTAGGTTACTTTATTCTAAA
CTCTGTACAAGAATTCCAATGTGGCAGCCAGGAATTGCTTGACGCGATAG
AGCGTGAGAGGAGTATTAGGACAACTCCATCTAGAAACACTGCAATTTTT
CATCATCCTACCTTGGGGGATTTTGAATTACAGCATGTGAGTAAGCTTTT
ATGCACTCCTAGTTATTTGTAATTACAGTTTCCCATGAATATTTAAACTC
CCTACAACTGTTTATAATTAGTTGCATCTTTCAACTACTCTGATGCAGCT
GCCGGTTGGTGCAACTGATGCTGAACTCGAAGATCGTATAATTCAACACT
TAGCTGCCGCTGCTGCCATGGGAAGAGCACGTCATTTTGCTAGGAGGGAA
GGACAGAGAAATAGATCATCTGCTCAAGGCCGTCCTCACTTTCTGGTGTT
CTCTACCAATTCTAATGCACCTTCTGCCACTGCTTCCTCTTCTCCAACTG
AAGCAGGTGATGGTGAAACTAATCCTTCAATTACCGTGAGTGGCTCATCT
CATATTCCATTAGGAATCAATGATGAACCAGTGCAGCCAAATACCCCACA
ACGTCCCATCCAATCTGTTCAGGCATCTGGATCAAGAGTTATTACAGAAA
ATCAGCATGGGACTTCACCTTATCGGTTTGTATAATTCCTTACCGATTTA
TTTTTGTGCCTTCAGTTTTAGGTTTACTAACCAGATGCTCTCGTATCTGT
ACTGGCCTACTTCTGTTGCTGTGAGTTTCATCTCTATATATTTATATGCA
TACCATAGGTCTCCTAGTCGATCCTCCCCAAATAGTCAGGACAGAGCAGG
GCCTTCGGAATTTCAGTCGTTTTCCGATACTCTGAAATCTCGATTTAATG
CCATGTCATCTAGGTACATATACACCTGCTTCACATATGCAGACAGTTAT
TCTTCGCTTTATTCTTTTTCTGAGCTGCTTTAGTTCCTTTATATTTGTTT
TTTCCGTTTCTTTGTATTACTCCTGAAACTATATATACCTACAGATATAA
AGAGTCCATTACAAAGAGTACGAAAGGCTGGAAGGAGAAACTATTTTCTC
GCAACAGCTCTGCAACTGATACTGGTGGTTCTGAAGTTAGGAGAGAGGTT
AATGTGGACGTTGGCACTGTATCACGAATGATGGGGAATCTTGAAACCAA
CGACAATGTTCCATCACCTAGTATCTCTGTATCAAATACTTCGGAGGGTA
GGCCGGTTCCTGAGCATGGCCACCAGCATACTGGCGGGACTAATGGCGCT
ACTTTGAATGAGAGCAATGTACAACCTTCATGTGCTGCAACTTCTGCTTC
AGATTGAGTACTCATACCAACTTATAAACTATATATTTAGGTCAGTATAT
TCTCTATACAGTAGAACCTCTACTTATTCTATATTAGAGTAACCTCCTTA
TAACAGTAAATATTTGTGGTCGCAATTCTATATACTCTGGGCAAAAATAA
TCTCCTTTTAGGAATAAACTCCACATAGTAATATTTTTTTTCCGGTCCTT
ATTCTATTGCAATAGGATTTAAAGGGCTAAGGCATGATTGGACTTGTCCC
AACTTGCAACTGGATAATCGTATTGTGGTTCTACTGTAATAGGATCTAAA
GGGCCAAGGCATTATTGGACTCTTTCCAACTTGCAACTGGATAATCGTAC
TCAAAAGGCTTGCAATGAGATTTAAGATTACTAGACTAATAAATACTTGC
ATTTGAGTCTGGTGAACTGAAAAAAACTTGCACAACCCTCAAGTTTTATC
GACTTCAAATGGAAGTCCGTAAATCCACCACATAAGCTGTTTCTTGCACG
AGATGTACCTTGTTGTGTGGGTTGGCGGACGGGGGACAGGGTAGTGACGG
TGGTCACGTGAACATAGTCCTTAATTTGGGTAGTGGCTGTTAAATCCATG
GTTCATTGGATGGTTGGTGCAAGGACAGAGCCAATAAAAATCAGAGGCAC
ATTCTTGTGGCATAATATACTGTGAAAGGTTCTTGAAACCTAATTCACTT
AGTGATATGATGATGATGGGTGTTGCATAATGGGTATTGATGCTTCAATT
CCTAAGTAATCGCGTCTTTATGAATTTAACCTCCTTACTGAAACTGTTAT
TACATTGGGGGGGTGGGGGGATGAGAATTAGTACCTTGTGCATATCAAAT
CGTATGTGTGTGTATCTATATTTGTGTTTGTATATCAAATACACATCAGA
TTCCCACTCTTCTCCTTTCCAAGTGTTATAGCCTTATAGGATTGAAAATT
GGTGAGAATGAAGTGAAATTATATCAGCTACTGAAAAGGAGGTTTTTCGG
GTTGAGTGTAAAGATTAGGTTCATTGCATGTAGAATTTTTTGGGGTTTTA
GGGAAAAGAATGATTGAGATGGGTTTTAAATCTGGTGAGTAAATGTTATA
TGGGTCGGACAGGATCTGGGTAACTTAATTGCGAGTTTAATTCATGCAGT
GAGTTGACTGCAGAGTTGACCGCAAGTTTTTTCAGTTTGATGACCCATTG
CAAGTTGGGGCAGAGTTCAGTTATAAGTCAGCCATTTAACTCATAATGAT
ATCTACAAGATTCTTCATTCTATACTTTAAAGACAATTGAGCTTGAGTCC
TAAGAAACCTCAAATCACCATGCGTTATATAAAATTCAATTAACTCAGTA
TTGAATATACAATACCTGATCGAAATCATCCAACAATGTCAAGAATTAAG
AAGAGAAAATTCCTTTAGATGGGTTCTGTAAAGCATTTTGTGTCAAATTT
TGACCTGTCCCTCAGGCTGCTATTGTTAGGTTTAAGTATCTATACTGGAA
ATGATCACGTACTTATCTTTCTTATCTGCTTGTGTGTTTACCTGTATGTA
GCTGCTTTATTTGAAGTTATTATAGTTTGGAAAAGAAAAAACTTTGATGC
TGCTGAGATCAGCTATTTAAATACCTATAGAAGAAGTACTCTTAACTCTT
AAGTATGTGTTCAACCCTCTTGTGGGTAGCTTATTATTATTGCATCTTCA
GTTACATCCCAGTTTATTAAGTCTATCCACTGGATCATTGCTTGTAACTA
ATACTATTCTAGTAACAACTGATATAGTACTGTGATTATAATTCACATGA
GTAGAGAAGACTTTCAAACCCTGGCACATATAGGTACGTCTGTGGTCAGC
CTTATTGCACGGTACTGTTGGACCACCTCCAAGAAGCATTTAGCTTACCT
TATTAGCACAACTAGTTAGGGTGAAACTGGAACTTCTGAATTCCTTTTTG
TATTTATCAGGTCTTGTACTATTTTATCACTGAAAGTTGTGTTAAGCTTC
AAACTGTTCTTTAAAAAAATTCTGATTTCAGGTTGGTTTGTTTTTCAGAA
ACTGCTGTGCCTGTATGACTTCTTGTCTTTAGTCAAGCCGGTGATGATCT
ACAAATTGCATGGGGGAGCAGCAATCGATGTCTAGTATAATTAGAGAAAT
TTGACAGACAGTGCTCTTGAGAAAGTCGGAAACTTTAAAACCAGTTATAC
TACTGTAAATTTTCTGTGTTTGAACTTTGGGAGTATATTTCACCGATATA
CTTCTCTCCAGCTTTCTTTTAACTGGACAAGGCAGATGTTTGATCATAAG
ATTGTCTATACTTTGTTTCGTTGATGACATGCCATGAGTTTATATGAATC
GTCATAAAGTTATACATTATCCTGGTCTTGGCCATTTAGGTGTTTGTATG
TAATGAATATTTTTCA