| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017374320.1, is a part of gene, LOC108204738. |
| The genetic_marker, MK009384 1_34371495, is located in gene, LOC108204738. |
| 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_017374320.1 | XM_017374320.1 | mRNA | DCARv2_Chr1:34365150..34374521 |
AAGAGGGGAGAGGGGTTGGAATATTGTGTTCCGTGTTTCTCACCTGCTGT
GCCCCTTATTTGACTCTTCTTCTTCTTGTTGCTGTGAATTCATCTATTAC
TTACAATTCCTGGAATTGAATACAATCTGCTGCTTTGATGAATCACAAGC
ACGAGCAGCAGCTGCAGCAACTCCTTTGTTGCCTCCTCCTCTTAAGCATT
TTGGTGTTTTTGGGCTCTGCTACTCAGCTTGTGTCGCCGGGCCGCCGCTC
GCTCTTATCACTTCCAAAGTCAGTCACCTCTCTTTTTGTGTCTTTAACTA
CTCTATATTTCTCATTGTAATTTTGTTTTAATTTTCTACTTTCAGCTCCT
GCTAATTCTCCATTATTTTGTTCCAAATTTATATTCTATGCACTTTTTTT
TTGCAATAAATGTTACTACCTCCGCCTCCCCTCAGTTGTTTACATTGAAC
ACTGGGAGAAGGGGGAGAAAAGGTCCAAAAAGTCACTATTTCAAGCCAAA
TGGGCATCAATATTATTTTCTGAAAAAATGGCCCTCACTTTAAAACACGA
TTTGAAGTTGCGTTTTGATTTTTCTGTGTAAAACACGACTTAAAGTTGCG
TTTTCAGCTTAAAACACGACTCGAAGTTGCGTTTTTGTTAACATAACATG
AAATTGCGTTTTGAAGTGACAGTTGAGGGCATTTTTTCAGAAAATGACAA
TAGAGGCCTTTTGCTACTAAATAGTGACACTCAGGGCCATTTAATGTTTA
CATTTTTATATAAAAAATTTAATTTTTTTTATGAAACTGTGTTTTATATG
CGACTTAATGCAATGTAAATGAACTGTAAAAAAATGAGAGTGACAGAGGG
TGTATAGTTCAAGGTATTACATATTTGCTTTAAGACATACACCCGATTGC
TAGAATTGGATTCACTTAGCCAACAATCATATATCTACTATAACTGAAAA
AAATGTTTACTCCTTATATTTGCTCCTTCCTTGCTTGTTAGAACGAATTT
CCCTCTCATTCAGTGTTTGATATACCTCGAAACAGTGACCAAACAACTAC
GCTAGTTGCAACATTGGATGGGACAATTCATTTAGTGGATCCCAAGTCCG
AAAAGGTACTATGGTCTCAGGCAACAGGGGCGCCAATTTATACTTCGTAT
CACACTCCTGTTGATCATAATGAATCTGTACCTGGACCTCTTTACTATGT
GGATTGTGGAGATGACTGGATGTTGTATGCGCACACTGAACTCGGCAAAA
TGGTATGTCCTTTACTCTTACTTCGGCCACTCAACTGCCTTTTCTACAGA
ACCTCTGGGTAACATATCGATATAGGTATATGTTAAGATACTATGGCACA
GTTTTCTTTATTCTGGATCAGACCCCAGTACAGAACCTCAACATCTTATG
CCTTCTATGGGTGACATATCGATATAGGTACATGTTAAGATACTATGGGA
CAGTTTGCCCAACATTAAACCTATCACAGTTATAACAATGCACCATTCAT
AGATGATGCCCATCTTAATTAAATGTGCGTGTGTGTGTATATTTTGTAGT
CTTTGTGTAAACATATCATGTGTTTACTTTGTTTGTATAGGCACAGATAA
TGGGCGTAGGTATTTTTGTTTGTTGCCTAAACTTTACACCTTAGATATTG
ATACATCCGATGATATATTTGTTCGGGAGATTTTTAATTAGTCTCTAGAT
CGGAGCTCTGTACAAGCAGGAAATAAGTATCATGATAAGAACATATGAAG
AACTTAATTGAATGTCTTGAACCACTTGCATGGATGCACAAAAACAAACA
ATTGGGATACCTGTCCCCAAACTTTCAAGTCGGAAGTGACCTGAAGAGTA
GAAGATTCAGCAGTACTGTCAGATGTGGAGCCCTAGTTTAAGAAACAGCT
ATCGATTAATGTATATTTATTGAATAGACTGTAGTGGTAATTTAGTTTCT
TAATTATTTGGATGATTTGTTTATAATAGGATTAGTATATTCAATTTATA
ATTTCAGTATTTAATTATAAATACAGATGATATTTAAGAGTTTATTCAAT
AGAATTAATTATTATGAAATGATGATTATTTGGAGAAAAAAAAAATGCGG
ATATTGGTGTGTCTACATGGATTCTCTTTGGAGGTGGGCATTACCATTTC
TCAATTTTGTTGTGTCTTACATTAGGAACTGATTTTGAAAAGATGCTTGT
CAACACTCAACAGTGTGATTATTTTTTTTTGGGTGATGCAATGAGAAAAA
AGAGTGAGGTTCTATGAAAGCCTCCAGACCCACTATAAATTTCTTGCGCA
ATGTTGTGTTGATCCTCTAGTAGTTTCTAGTATTTTTTAGAGTTAATTGC
AAATTGCACCTTAGAGTTAATTGCAAATTGCACCCCTACACCTGGGACCA
AACTCACTTTAGTATACACACTTTTGGAAATTGCATTTCGCATCCCTTGC
TATTTTGTATACTGCAGCGCACAAAATAGTAAGGGGATGCGAAATGCAGT
TTCAAAAGTATGTATACTAAAGTGAGTTTGGTCCCAAGTGTAGGGGTCCG
ATTTGCAATTAACTCTATTTTTTATGAAGGTAAAGTATGAAGTGTGCACG
ACAATGTTGACCAAAGCTGGGTAGTCTATAAGATAAGATAATCAAAAGGC
ATGATTTCTTTTGATGTCAGGGTCGTAATAAGTTGTTTATTTATACTAAG
GTTCTTCAATATTTACTTGGGTTTTGTGTTTTGTAATGGTTAAATCATTG
ACCTTATGCTAAGAAATTATATGTGCAGAAACTTGATAGGAGCATTAGGG
AGTTTGTTGTTAATACTCCACATGTATCAGAGGATGGTGGAATATTGAAT
GGAGCAATGAAAACTACCGTGTTTGTGCTTGATGCTAATAGTGGAAGGAG
AATCCACACATGTGGGCCAAATGAATCTCCTGAATTGCATAGAACTGGTA
GCATTCATATGAAGGCAGATGAGCTGCCACTTCACATCACGCGAACAGAT
TATTTATTGTCATATGCCTCCAAAAAATATACCTGGAATGTGTCAGTTTC
TGAAATTGGTGCTGCTTTTCTTTGTCAAGATATTGAGAATTCAATTAGTA
GTTCTCGTGCAAATTCTGGAAATGAACTTCCTTCCAAGCCTGCTGTTCAG
ATTAATATGCCATTGGCATGCCAATCAAAAGCTGTAGTGGCACGTCTACG
AAGTTTTAATGTGTTAGAATACTTCTCAAAACAAGATCAACGACCACTAG
GTTATCATGAAGACATGATGCTGCCTGCACCCTCTCCGGATTATATGCCT
CTTTCACAAGCCAAGGCCGGTATGAGTCTAGACGCACATCCTGATTCAGG
ATTCATGTTTGCCTTACCTGAGTTGAGTAATAATTTCGAAATCTCTAGCC
CAGATGTGAAAAAATCCTACAGAGGCGTCCTTTCCCTCGTTCCATTCCTT
TTTATTGGCATGGGTGCTTTGATCTATTTTTGTGCTATACTTCCTGGGCA
TCCGGCTAGAAATGTAAGTGCAAACAATGCTTCTTCCAGAAAGAAGAAAA
ACCGAAAGTCAACAAAATATGGTGGTATTGTTGAGAAAAAGGATAAGAAA
ACATTGTTCGATCTTGAGGATGGAAATACTACCAGTGAGAATGATAGGAA
GTCGTTTTTGAATTTTAACCAGCTTTCTAATCAGAATGCTGATGGGCGTG
TTGTAGGTAAATTATTTCTAATGAATAAAGAAATTGCCAAGGGAAGCAAT
GGCACAGTTGTCCTCGAAGGAATTTATGAAGGCCGGCCTGTTGCAGTTAA
ACGCCTTGTCAGGGCTCATCATGATGTGGCCTTCAAAGAGATTCAAAATC
TTATTGCATCTGACCGCCATTCAAATATTGTTAGATGGTATGGTGTGGAA
TATGACCAAGATTTTGTTTACCTCTCGCTTGAACTTTGTACCTGCAGCCT
AAATGATTTAATTTTGATGCACTCTGATCATTCTCGGAAGTCGGTATATT
CAGGAGCTCGGGCTTCTAGAGCTATGACAGAGTATAAGGTTCGCTTAGAT
TCTATGAAAGGTATATTACAGGATATCGAGTTATGGAAGGCAAACAGTTA
TCCTTCTACTATGCTCGTGAAGTTGATGAGGTTAGTGTTTATGATGCAAC
TAAAAGTTATATAATTTGTCATCAATGTAAGTGTCAATTTTAGTGTAAAG
TGATTTATTATCATTATGTCGTGAACTTAAATCTAGATAATGTATCATGA
GATATTACTTGAACTTGTTACCTATAAAGTGAATATATTATTGCTGAGGA
TAAGTTACCTGAACTCAACTGACTAGATACTTCCTTGTGTAGATCTAATA
TTCAATATATTAGAAAGAATGTGATTGTGAATTTCTCATCTTCATCGCCC
CCAGCCAAAATTAATCTAGACTTCTCTATATATCAAGAAGACTAATATCT
TTAATTTTTATGAAGCATCTCTTGATGACTTTGTTATGCCAAGTATTGTA
ATAATGTTTCTCCCTGGAGGCCAGAGTCTATACCCAACACATTATTTGTT
CATATAATTTTGCACAAAAGTATCCACCATATTGGGAAAATTTAATATTG
ATGTGTTACTAATTTGTGGCCATATATAAATCTATGTGATTACTATTGTT
GTCTAGATCTGTTTTCTCGTGCTAATTGTATATGTAGGCTTAATACTAAT
AGTTAAATATAGTTTAGCATTTTCTATCTTGGGAGTGTTCTTGTGATGTG
TAAAACACAGAATTGGATTTAGCACTTACATAAAGTGTGTGCATGTGCAA
TACAGGGATATAGTTTCTGGTCTTGCACATTTGCATGAACTGGGCATAGT
TCACAGAGACCTGAAGCCTCAAAATGTGTTGATAGTACAGGATAAAATTC
CAAGTGCAAAGCTATCAGATATGGGAATCAGTAAGCGCCTTGCTGGGGAT
ATGTCTTCCTTGGGTCATGCTACTGGCAAGTATCCTGAACTGGCTTTATG
TTACTTTCAGCAATTGTTAAAGCTTTAAATCTTCGGTTGTAGTAGTTTTA
CATTGAAAAGTTAGTTCAAAATAGTGTACTAATAGCTAATATAATCACAG
TGATAATGATATACTTTATATTGTTGTTTTACCTTGTTGATTTGTAGTTC
AAGTATAGTTGTTTCAGTATTACCAATTGCCTTGAAAAAGAATCTTGTAT
TGACCTATTAAGGACCTTGCTTTATGTGCAATTAGACCAGCACATGTAGG
TCTCCTTCCACTGTGTTAAGGAACAAGGGAAAAAATACTATATATTAATT
ATTGTTTTAAACATTAAGATTGAATTCTTATTTTCTTTCAGTTGATTTAT
ATTATTTGGAATATTCTTGAATGGGGGTAATTTGTTGTTAGTTATCGTGT
TCTGTGCGATCTCTTACTTGTGAACTAGAATACATATTTAATTAGAAAAG
TAGGTTCACTTTAAATAGAGTTGGAAATATAGATTACAAACTTATGAATT
GAGTATTTGGTCTACTCTTGTTTATGGCCTTTTGACTTACTATAAAAAGA
AAACTATTGAAAAGATTTATTTCACTCAATTCACAAGTCAAACATGGTAT
CAGTGTTGCTAGTTAGCTTGTAAGTGTACAAAATAAGAAAAGAATTCTGT
TAATTCATTGTATACTAAAAAGTGAAAACCTTTTGCCTGAATGGAACATT
ATAGTAATTAGTTTGCATAGTCTAATGTCCTATATAACATATCAAACAGG
ATCATCTTTATTAATGATCAAAGTCTGAACACCTGAAATGCAAAAAAAAA
TTGTTTCCTATCTCAACTTTTGATTCGATGAGCCATACTGAGTTAGAGTT
CATATTTCATTATGTATTATAGTGAAGGTGCTGGATGTATGCTACTCAAA
ATGGAATTTTTGTTATCAGAACTAAAATATTATAGTTAAGAATTAGCTGA
TGTGGTCATGTCAAATATACCTTTGTAGATGAGCCACATTTGCTTCTTAT
AAATGTGCTGATTTGTATTAATGACCTGAACCTGAGCACTTGAGTGCACC
ACAATATGTCCAACTTCAGCTTTTTAAGATTGAGCCGGATCAAGTCAAGT
TTCTTCATGTTTTATATTTGTATAGGTTGGCTTTATTCTAGTTGAAGTAA
AATTTGTCAATTTCAAGCTCTACATATAGACATAAAAGCTACATGGTTGA
GTTTGGCTCAATAATAAACTTGGTCTAGGAAAAATTTCATTTAAAATCGA
AGGCGATCAAAGGGGATCGTTTATATTCCTAACTGTGGATTCTGGAAGTT
CTTTAAGGTATCTATATTGGTATACTAGAAAGCCTTTGTGTTTGCTTTTA
ATTTTATCACTTTATGAATTCTGCCAGGGAATGGAAGCTCAGGATGGCAA
GCACCTGAACAGCTTCTCCATGGGCGCCAAACGCGTTCTGTTGATATATT
TAGTCTAGGATGTGTTCTCTTTTTCTGCATCACTGGTGGCAAGCATCCAT
TTGGTGATCCTCTTGAACGTGATATAAATATCACGAAGAACAAGGTGGAC
CTCTTTTTAGTGCAGCATATTCCAGAAGCAGTAGATCTCCTTTCATGTTT
ATTAGATCGACAACCGGGACTTAGGTAAGAAATTGTGGTTCTAAGTATCG
ACAGATAGTATGATTTTACTTTTGAGACATTGTTGATGAAATTAAAGTTG
CTTTCTTACTCTGATATGAGGATTGCCCATTTTTCAGTTCCTATAAATTT
TAAAGTCTTTCTGTATAATTATATGTTTAGAACCTGAAAAACATGAGGGA
GAAGATATAAAAGGAAATAAAATCTAAATTCTTTTGGTTATTTCTACTAG
TTACTAATCATTATGCTGTTTAATGTTTTTGTTAAGTTCAATTATTGAAG
AAATGTAGATTATTTGAAGTAGTTTACGTGGGACGGTATAAACATTCTTA
TGTATGATTGCTTATATTTGCTTCTTCTAACTCTCTTTATCTTTCAGGTT
CCAAATTTAAATTGGGTGGTTCTAGTTGGCTAGTAGTTAATTCTTGAAAC
ACAAATCACACATATAAACATTTTACCTATTTGTTTGAGATCTTGTTTCG
ATTAAACTGTTGTGAACTACATACTTTGGGAAGCTAATGGAGTATATTTT
AACAAATTTGCGTAGTTTTACTTGGAAAATTGTTCTGTACTATTATTTAT
ACTAAAAGGAGCTTTACAGTTTTTAGGTCGGATGATGGGAACAGAAGTAA
AGAACTTTTACATATGTTATCAATTAGTTTATAGAGAAAATGGAATATCA
GATAAACCTGATATTTCTTATATGAGGTTAAACTCTGAAACCGAGGACCT
GGTGCATGTAGTTCGGACTTCACTTCTAATATGTGTATATCACTTCTTAA
TTATGTGTGTATGATGCTGTATAAACCTCCTTATACATATATTATATGGT
ATACATTTGTTGTTTTGTGTTTATGAACCGAACTCTTGGTATCTTAAAAA
AGAATATAGACGAAGGTGGAGGATGCGTTTACATGAAACGACGGTCCAAA
TGCGCATAAAAGAGAATAAAGCGTGTAGTTTAACCTGATATAAGAACACT
GTTTATATAAGGTTAATCTGATATTCCTTATTCTCTAGTTTTATATATAT
TTAGTGTAGAGATAAATAATATATTTATCTGAATGTTTTTTATGTAGGTT
AGTAGTTTATAAAATATAGATTACTTATAATAAGCCTGAGTGTTAACCAG
TCTTGCTAAATTATGTTATTTCATCAGGTATTTAACTCTCTATATAATGA
TATAAGCCCCATATCGGACTTGATTACTAGAATGTTGTTGAACATTGAAT
TGGGTCTCTTTCATGGGTTGTAATCCATAGTTTTACCGTTTTAGTGGTTG
GAAAACTCTTGGGTAGTGGGTTTTTGCGGTTGATTCACCCGAATTTATCA
TCATTACCGTTTTTTAATAGTATAATCATCCTTTCTACAATATGTCCTGC
ATCATTGGACATGAACGATCCTCCTATCTAAATTGCTACCACTACTCTAC
TCACTGCCTCCTCTCGTTCCTGCATGCTCTTTCTATGTGAATTCTGGATT
TTTGAACATTATTGTATCTTACTTGGTAATATTATTGCAGGCCAACTGCA
CTAGAAGTCTTGCACCATCCTTTGTTTTGGAATCCCGAGATGAAACTGTC
ATTTCTTCGTGATACCAGTGACAGGGTAGAACTTGAAGATAGGGAAACTG
CCTCTGATATTTTGATAGAGTTAGAAAGTGTAGCAGCAATGGCTTTAGGT
GCAAAATGGGATGAAAAGATGGAACCTGCATTTCTCGCAAATATTGGACG
CTATAGGCGTTACAAGTTTGACAGTGTTAGGGATCTTCTAAGGGTGATGC
GGAACAAGTCAAATCATTATAGAGAACTTCCAAAGGAGATTCAGGTTTTA
TTTTCTGGCCTGACTACTTTTTTTTCCTCGGGTGACTATTTGTTATTGTT
TCCTTCCCGAATGGATACATGCTCACACCTGCCGTAACAGCCCTTTTGTT
TGAAAATACAGTACTTTGCATTAATGAATTGGTATCTTGTGACTAGAATA
GTTGAACACAGGATTCCTAACCAGGGAAAGATATTGCACGCATCCAGAGA
CATGTATATGCAATGCTATATTTTCTGCATGAATAGAGCAACAGTTATAA
TTGAAATTGGTATATATGCATTTTCATAATACTTCACAACAGAAGATTTA
ATTAAAATACTGAGAGATAAATTGTTACATGTTTATGTTCCTGGTTCTGG
TAATATTGTTGTTGCTTTGTTTGGTCATATTACCTGCGTAGAATTATGCT
TCGCTGCTTCAGTTTAACAAAATAACCGGTATGAGCTGTATTTGGGTTAT
TCTAGGAACTTTTGGGACCAGTACCTGAAGGGTTTTATAATTATTTCGGA
GACCGATTCCCCAAACTCCTGATCGAAGTGTACAGAGTGATGTACAAGTG
GTGCAAAGACGATGAGTGGTTCAGCAAGTACTCCAGCAGTGCAGTATGAA
TCTTCTTTTAAGCCTCTATGATGGTTCAGATGAACAGAAGTGACAGCTAG
TGCCCAAGTGATGGATGCTATATGCTGGCCCTTCTAATGTTTTAGGACTC
AAAGAGGTGACAGCTGGCCACCAAGGGCCTTGGTGATGGATATTATATAT
TTCTCCTCACTTTCAATCTCGACTGTAGGTGGTATGTGTAAATGTAGCTG
TAATTACTAAATGGGTGCAACACAACTTTTATTTATGTAATATAGTTCTA
ATTACTACTAACTTTGCAATACATATTTACTTTCTTTTAACAATTTTTTT
TGACAACTTTCTTTTAACAAA