| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017398510.1, is a part of gene, LOC108223996. |
| The genetic_marker, MK003088 K0532, is located in gene, LOC108223996. |
| 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_017398510.1 | XM_017398510.1 | mRNA | DCARv2_Chr5:30331782..30341034 |
CTGAACCAAACGACCCCTTAATTAGTTGGGAGAGCACACATGTGATTTTG
TTTTCCAAATAAACAAATTACAACTCGGAGAAGCTTATTAGGGACACTTC
AAGATTCCCCCATATTCCCCACCAAAACATTCCTAGTTATATATACACAA
TACACACAAACACAAACACAGCAGTGTGAGTTGGAAAGGGGAAAAATGGC
GAGCCCTCCGAAGCCATGGAAAGCGGAATATGCGAAGTCGGGTCGATCTT
CATGCAGAACTTGCAAAAGCCCTATTGATAAAGAGGCTTTTCGTCTGGGC
AAGATGGTCCAATCCTCCCAATTTGATGGCTTTATGCCTGTAAGCTTCTT
ACACTCTTTTCTGTTGCACATTGTGATTAATTTGTTGTGGGTTTTGCTTA
TTTTGTTCAATGTTGCATATTTGTGTTGTAAAACTTGATGCCTTGATGCT
TGTATGATAGTACTAATTAAGTTTACCCTGTTCTTGTTTTTCTTGATTCT
GGCTCATTTGCTTTGTGCATTTGTTTTTTGCAATTTTGTGGTGAGTGATT
TTTTGGGCCCTGAGTTTCTAAAGACCACTGTAGTATACTTTTCTATTAGC
ACGGCCTATAATCATATTAAGTAGATATTTTTTCAGCAAGATGTGAAGAT
TATGTTAAAATATTGTAGTAGAATATTTTTTATGCAAATATATGTTGGAA
AGTATTGATTTTATAATGATTTTTTTTATAGAAGATTAACGACATGGATT
GATCAATTATATATTTTGATAAAAAATGAATAATCCAAATTACTAAATCA
TTTGAAAATCTGCATATTTATTTATTTTTACTAGATATTTACATCTGTAC
GGTCGAATTTTAATTAGATGTATAAATATTGTAAATTTGAGGCGCAGTAG
TAGAAAACAATTTTTCTACTATTACCTTTAGATTCTATTTTCCCTGTTTT
TATTTGGGTTTTATATCAAGTGACCAGTTTTATCGTTAAAATATCTCACC
TCACCCGCCCACACAAGAAAAAGTGTACTAGTACTACATGTGGCTCATGT
AATAAAAATAAATTATAATTATACATGCAGAGGCATGTTAAAAACACATA
TATGAACTTAATTAATCTATGCCTAGGTATGAAATTAATCTATTTGAAAA
AAATTCCCCAATTCTGTTAAATTTTTGACAGAGTGATATATTTAGTGATT
TAATTAATTTAAATGATTCCTCGTAGAGATCGGTTAACTCCATGAAATAT
TTTGACAAAGACAGTGGCTACTTTGATATAAAACCCCATTTTTATTTTGG
CGTGTGCGTTAAAACCCATAGTATTTTTTGGGAGTTTTGGTGTTTTGATA
TTTGTGTTGGAAAAGATTGCATTTTTCTATTGTTCGCCCTTGTAAATACT
ATTCATTTTTGGTAGGAAGATGTTGAGGATCGGAGAGTGGAGGTCTGAGT
GTGCACTTTAAATTTTGCAAGTGAAATGAGATAATTTTGGGAGTAAAATT
GCACTTTACTTTTTTTGGGAGTTCTTGTTTCTCTTTCATGGGATTTTACT
GTGAGGAGGGGGCAGGAATTTGGAATTACATATTTTAATATTTCTATAAC
TCATTGTTTTCTCGCCAACCATTTATTGTTTCAGTTCTTGTTAAAATCCA
TTGCAGGCATATAATCTGCATTGGTGTCATTTGAGAAATTATGCTTGATA
GTTCTCAATCCTATCAGTGGAAATTCTACTTAAATAGTTCAGCCCCCAGC
CTCTGCATGCTCTAGTGCACACATGATTCTGTACTCTTTGTATAAAATTA
CCTACAGCCCTTCCTTTATGTGTGTGCTACATAAACTCATTTATTATATA
TGGAGCATAATATTTTCGTATAAGATGTATTTGTTGCATTGGTATAATCA
ATCAATTATATACTGTGTGATTCAGATGTTACTCTCACCTTGTGCAAACC
TTAGTTTTTAAAACCAACTACAGTGATGAGTAGATGTTTCTGTCATCTTT
TGCGACCCGGTGCACGGATTGATATCTTCATATTGATGTAAATGTCGTGA
ATTATTGGAACAGATGTGGAACCATGCCAGCTGCATATTGAAGAAAGCCA
ACCAGATAAAGTCGTATGTTTTTCAATTTTAATTGTTTCTGTGATGGAGT
TTCCTTCAAGTAAAACATGTCTTCTTATTTATTGTTTGTGTTTTATCTGA
ATACACACCTTTATAAATAGCCAAGATGATGTTGATGGCCTTGACATGCT
TCGATGGGAAGATCAGGAAAAGATTAGGAAATATGCTGACGGTAGTGAGG
CCCCAAAGTCTGGTGGTAGTCGTTCTTCAAGAGCTGCTGCTTCTGCAGCT
ACAGCCTCTGGGATTGAAGTTTCGCAGAGCAGCCGTGCTACTTGCAGACA
ATGCAACCAAAAGATCATGAAAGGGGATGTAAGTTAGAAACCTCTTTCTA
GCAATTAATTATTAGACTTACTGTTACTAATAGTTGGCAGCTGATTGTCT
CTTTCTTGCTATGGATTATATTTTTTTCCTTTTCCATGGCACATATCAAT
ATATCATAGACTTAGATTACTAAAAAATGAATATCAATATCTAATTAGCT
ATAGCTATAGATATTACTAAAGTGTTTCTCCACTTTTTGAACTAATTTTC
TGCTCATTTAGTGCACATCCATCTGGGGATTAGTTTGTTGTCCTTCATTA
TTCTATCTGTATTCTGTACTATATTAATATCTGTACTTCTGTAAATGGTC
TGTGACTGTAGTATGAAGTGTTTATGCTGTGGCATGTTTCAGTCTTATTA
CCACTTGGATACTATGTATGGTCGTATCACGTATGATTTCTATGTTCCCG
TAATGGTCCTTTAACAATAATTACACTTTCTATTATCAGGAGAAAAACCT
GTTCATCTACTCTTGGGACTATATATATATATAGCTTTGATATACTCTCT
CCGTTTCAATTTACATGTCCACTTTTAAGAATAAAATTTGTTTCAATTTA
GTTTGTCCACTCTAGCTTTCAATGTAAAATTATATTCCCAAAGTACTTCA
CATATATGTTATTTATATTTCCTAGATCCACCTCATTCCACATATTACAA
TCATTTAATGCGATTTATTTATAAACATTCACTTTTCTTAAACTGTGTGA
TTTTTTAAAAGTGGACATCTAATTTGAAACGGGGGGAGTATTAAATATTA
CTTTGTTTCATGCTTAATTTTGTCATATGTTTGAAATATGTTTACTTAAT
TTGAAGGGTTTGTCTAGTGTGTGCCCCTGGGCACATGCTAAGCACCAAAG
TTTATGAATTTGGATGCTTTTGATTGATGTGGTTGTTGTAAATGCAGGGG
GGTCCACCATTATTAAAGAGTGTAACCAATCAAAACAAGAGAAATCCTTT
TATGCTTATTGTGTGCCCATGGGCACACCATAGAAAAACTATAATTTGAA
ATCTCTTGTAACCAAGAGAAATCCCTCAAATTTTATGCTTACAGTTCGAT
TTTTATAATGCATTGTTCAGGTACGTATATCCGCTAAACCTGAGGGTCAA
GGTGCTAAAGGTGTGACCTGGCACCATGCTAACTGTTACATGGAATCATC
TCCTACCATTGAAGTAAATAAATTATCTGGATGGGATGATCTTTCTGCAT
CTGATCAGACTGCTGTCATTGCGATGATTGAAAAGTCAACTAGCAAAGGT
GTTTGAAGTGGGCTTGCTTAAACATAAACATAACTGTGTGTGATGTGTGT
GTGTGTTTGATGCTTTTACTGATCACTAGCATTTACTTTTTCAGGTCCAA
TAAATGATCCAGTAGATGATACAAAGCCTATGCAACAATCTACCTCTAAA
GGTAATGCTAAGCGCAAAAGTGCATCAACCAGTGAACAGAAATTAAAAGT
TGCTAAGGCTGAAGGTGATGTACTGCCAAATACACCTAAAAAGAATGCTG
ATGCCTTGGGAATCGACAGCCCACGAGCATCTACCGTGGACAGAGAACTA
GAAACCCAGTCAAAAGAATTATGGTCTTTGAAAGACGATCTCCGGAAGCA
TGTCACAACTTCAGAGTTGCGGGAGATGCTTGAAGTCAACGAACAAAATT
CAAAAGGATCAGAGCTTGACTTGCGTGATCGCTGGTAAGTTCTTTTAGCA
CATAGCTATGAGCTCTAACTTCTAATCTACCCTATCTTCCTATTATAGTT
GGCCCCTTTCTCGGTTCAGTTTGGTTTTATTTAATGCTACACCAAGACAC
ATTCTTATACTATTTTTGTTTACATGTATAGTGAGCCGCTGAAAGACACT
ACCTTATTAATAGAAGTAATACTTTATTAAATAATGAATGGAGTGTTTTC
TCTCTTTTTTTTGGTTTGACACTTGTATGTTTTTCAGTGCTGATGGCATG
CTCTTTGGAAAACTCGAGAATTGCCCTCTATGTTCTGGGTATCTTTATTA
TTCCGGAGGGATGTACAAATGCAGTGGGTTCCTGTCAGCCTGGAGCAAGT
GTTCGTACTCCACAACTGAATCTGTACGTGTACAAGGGAAGTGGAAGATC
CCAGAAGGGTCAGAAAATGAATATCTTGTCAAGGTATATATTTTGGCTGA
ATTCTGAAATATTAGATAACAAGAGGGTAGTGACACATCTTGGAAGAACA
TATTGTATAATACTTTTGTTATTTTCCCTTGGAAGAACATATTGTATAAT
ACTTCTGTTATTTTCCCTCTCCCATCTCTTTTTAGTGGTTCAAGTCACAA
AAGGTAAAAAAACCTGTAAGAGTACTTCCTCCACCAACACCTAGTAAACC
CTCTGGAACTCCGTCAACAAAAGATGGAAGGTTGGAGGATCTAAAAGTTG
CTTTTAATGGATTATCTGGGCCGGCTATGGTAAGTGTCATATATAGTTTG
CCGTCTACCTCTTGAACTCTGTTTAAGCACTCAATATTCCTGTATAATGT
AATTTTCGTGGATATTAATATTGAACATGCTACTGAGCAGGAGGAATGGA
GGAGCAAGCTTGGAGAGGTAGGTGTACAGATTCATGAAAAAGTTAAGAAA
GGTATGTAACTTCTACTTCACGTAGCGGATATCTATTGATGAATACTGAA
GTCTTAACTGATATATATATTTTGTTACCTAACTGACAATGTATATTGCA
GAGACAAACTGCTTGGTTGTAAGTGAAATGGTGAATGGTCAAAATGCTGA
AGTAAAGAAGGCAAGGTAATACTGCCTTATTGATGGCACACAATTTTTTT
ATGTTCATTCTATGAAGTTTTTAATTCATTGTAAAAGTGCTTCCTCTTGG
CAGGAGGATGAAGTTACCTATAGTTAGGGAGAACTATCTTGTTGATTGCC
TAAAAAGACAGAAGAAGCTTCCGTTTGACTTGTATAAAATTGAAGCTTTA
GGAGAGACCAGTGGCAGTGATGTGGTGACGGTCAAAGTGAAAGGAAGGGG
TGCTGTGCACGAAGCATCTGGCCTACAGGATACTGGACACATACTTGAAG
TTGGGAAGAGTATCTATAATACTACTCTAAACCTGTCTGATTTGTCTACT
GGCGTCAACAGGTTTGTGTAAATTTAAATGCCTCTGTTGCAGTGTACCTT
TTTTCTTCTTTGTCCTTTTTATACTAGTCAAATGAGATACCTATCTACAG
TTAATCGTTACAGATGTAAGCTCAGCATAGATCGTATGGTATTTATACTT
GTAAAACATCAGCCATATTGTTCTTCAAACTTATTTTATTAATCTATTGT
TGTAGTTATGTAAATTCTGGAAGTAACTTTAACTTAAGTTTCTGTGTTAC
CTTGACGTTTCTGCAGTGGAGATCTCTAATAGAAAAATGTCTATGCTGAT
TCTTAAAAGTTATTCTTATGTTTACAAATGACACAAGGCGAATAAGTATT
GAATGACAAATTATTGTTTTCTTTCCTTTAGAAGAGGTATGTCAGCATGT
TCTGCAGCCCATGCGTCGGTCTCATATATTGGAACTGTCATTTATAACTT
ATTGCTTCTGGTTCTGCGGTCAACTAGTTTCTGTTTTTCATTTGTGGTGT
CTTGCAACCCCTCACATTTATAAAACTAAGTCTCTGAAAGAGTGGGCATG
TAAGTCTTCTAGAGTGATTAAATTTTTTCCAAAAATTTGAAATTGTTTTA
TAAGTAAGAGGTGTCATGATTAATTTAATTAACTTCGATTATACAATTTC
TTATGCTTGTCTCGATCATTGACTATGTTTTTTTCTGTATGAAGCTATTA
TATCCTTCAGATTATTGAAGAGGACAAAGGGTCAAATTGTTATGTGTTCC
GTAAATGGGGACGTGTTGGAAATGAAAAAATTGGAGGAAATAAATTAGAC
GAGAGGGACAAAGAAGATGCAATTGAAGAATTTGAGCGACTATTTCTTGA
GAAAACTGGTAACACATGGCGTGCATGGGAAAGGAAAGTAGATTTTCAGA
AGAGACCTGGCAAATTCTTTCCGCTAGAGATTGTAAGATTTAAAACAGTA
ACTAAATTTTATAGTAAGTGCTTAAAATGTCTTTTCTGATAGTTATTTAA
TTTTGCAGGATTATGGGGTTAATAAAGAGATGGTTCAGAGAAAAAACTTT
AAGGATTCTGATAGCAAACTTGCAAGGCCATTACTAGAACTGATGAAGAT
GCTTTTTAATGTGGAAACATACAGGTTCATAAAATTTTACCCATTTCCCA
TTTAAGTTAATGATTTGCCTCATAGGATGTTTTGAATTAAAACATAAATT
TCCAGAGCTGCAATGATGGAGTTTGAGATCAATATGTCTGAAATGCCTCT
TGGGAAACTTAGCAAAAGGAACATCCAACAAGGTATACTACTATAGTACT
ATACATAAATTATTTGTGTAGATTTTAAGCATATATGTTAAATTATTTGT
GTAGATTATAAGCATATATGTTAAATTATTTGTGTAGATTTTAAGCATAT
ATGTTAATGGTTTAAACTTTAACGATTAAAATCAGTACTTGAACAATCTG
AAAACTTGCATTAACAGGTTTTGAAGCCCTAACTGAGATTCAGAATTTAC
TGAGCAGTAGTGCATACAATCCTACTGTCAGAGATTCTATGATTGTCGAT
GCCAGCAACCGTTTCTTCACTATGATTCCTTCAGTTCACCCACATGTGAT
TAGGGATGAGGATGACTTTAAATCAAAGGTATATGGGTGTTGTACTGCAT
AATTTCAAGTTACATCGTTCATGTTCTGTTCAATTTAAAACAAATGTTAT
TCTTCACCTGGTCTACTATATCTCTAGTATGTAGCATGCTGCCTATTGCT
GCTTAATGTTTCCTGTCTTGTAATTGTTACAAGTTGCAGTTCATTAATCT
ATTTTCAATAGGTCATAAATTTCCTGTCTTGTAATTGTTACAAAAGAAGT
TGTTCATTAATCTGTGTTGAATAGGTCAAAATGCTTGAAGCACTTCAAGA
TATTGAAATTGCCTCCAGGCTAGTAGGCTTTGACACCGATGATAGTGTTT
CTGTTGATGAAAAATATAAGATGCTTCACTGTGAAATGAACCCTCTTCCT
CACAACAGTGAGGATTATCGGTTGGTTGAGAAATATCTCCAAACTACGCA
TGCTCCAACTCATTCGGTGAGCATGCTTTAATTAGTTGTGGTTATTATCG
TTTTTTTTTTTTTTACTTCTTTTATGGCGTCTTATTATGAAATTGTAATA
CTATCAGGACTGGTCACTCGAACTGGAAGAGGTTTTCTCTCTTGAAAGGG
AAGGTGAATTTGACAAGTTTGCTCCTTACAGAGATAAACTAAAGAACAAG
ATGCTCCTTTGGCATGGTAAATTAATTACTTGTGATCACAGTTGGCTGAT
GAATATTTAGGTCTCTTTACATTTTATGAAAAAATGTTAACTTTCTAATG
TTATGTTGTAGGTTCTCGGTTGACGAATTTTGTGGGTATACTTAGCCAAG
GATTGAGAATAGCCCCTCCTGAAGCTCCAGCAACTGGCTATATGGTTATC
TGTCCCTTCTTTCTTTTTCTTTTTTAAATTTTGTACAAGATAATTTGTTT
TAAAGTTGTCTGCTTATTTTAATGTTGAAAATATTCTTTCTGATATTAGT
TTGGCAAGGGCGTCTATTTCGCTGACTTGGTCAGTAAAAGTGCTCAGTAC
TGTTATACTGACAAAAAAAACCCTGTGGGATTGATGATTCTTAGTGAAGT
TGCCTTGGGTGAAGTGTATGAGCTAAAGGGTGCCAAGGTAGGTTTCTTTC
TGCATAAAGGTCATTTTATCTCTAGCAATTCTATTAGTCGTTGGTAGAAG
GCATGCATCTGGAATCTGATATTTGAAAGTCGCAATTTACATGTCCCATA
TTCTAACAAGCATGCGTATTTCTCATTTTATTTTAGTTGTGGTTAAATTT
AATGGTTTTAACACAATTGTTTTTATTAATAATCAGTACATGGACAAGCC
TCCAAGAGGTAAGCACTCCACTAAAGGCCTTGGCAGACAAGTACCCCAGG
AGTCAGAATATGTTAAATGGAGAGATGACGTCATTGTTCCTTGCGGAAAG
CCAGTTCCATCAAATGTGAAGGCAACAGAGCTGAACTACAATGAGTACAT
CGTCTATAATACAGCTCAAGTAAGTTATTCATGTATTGTGTTGCTAGTAC
TATTACCTAGTTTTGAACTGAAGTTCTAAACATTACTCTAAATCTAATAC
TGTTAATCGATGAACAATCGTCTTATTTGGATTGTTGAAGTATCTACCAT
CAATCACCAGCCTCCTTTTAGTTGGATTAATTATTGCAACAAAAAAAATT
AATCATAATAATATTATGAGAACAATGTCAGATTTGCTTGAAGACCAGTT
CTGCTGTTTATTGCATTCTCTGCCATGTTTTGTACTATTGTATGAATGTT
TTGGAGGAGTAAATGTTCATCTCTGTATCTTGGAACAGGTTAAGATGCAA
TTCTTACTGAAGGTGAGGTTCCATCATAAACGGTGAGGACCTAAAGGATG
AATTTTGGTGGTTGGATAGTTGCTTTTGTTAAGATCTTGTTTCTAGTCTG
GACGAGGGCCTAAAGGACTACAGATTTTGCTGATGTATCTTTAATTGTCG
AGGCATGCTTTTGATAAAATCTTGTTTTTAACTCCGCATGTTTTGTGGTG
CAACTTTTGCAAGCATCTGATTTTGGTTTAAGTTTTTGCCATTTCCGCCA
ATGTGAATATTTTTCAGCTACAATGAGTAATTTAGTTCCTGTCATTCCAC
TA