| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017374669.1, is a part of gene, LOC108204962. |
| The genetic_marker, MK004074 K1518, is located in gene, LOC108204962. |
| The mRNA, XM_017374670.1, is a part of gene, LOC108204962. |
| 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_017374670.1 | XM_017374670.1 | mRNA | DCARv2_Chr1:17205799..17214820 |
| XM_017374669.1 | XM_017374669.1 | mRNA | DCARv2_Chr1:17205799..17214820 |
TATACGTATTGCAAAATGTCCAATAATGTTAGCGTGCGTGTTTGATACAG
TAGCTCCTGTTTCTCCCTCAACTCCCTATTTTCTCTGCACTACTCTCTCT
CTACACTATTACTATTTCTCTCTCTTAGGACTTCCTCCAACACGCCTCTC
TCTCCCCAACCTTTGTACAAATATATATCAAGCTCGTAGTGTTTTTCCTT
CAGTTTGACAAGTTTATATGCTGAAATTTGGAGTTGTCCTCGTTTAAATC
CTCCTAATTTGTCGAAACTTCGATTCGATCGTTGAATTGTATTTAGCTCT
ATTGCAATCTCTGATTCTTCATCTATCTGTAAGTATTGCCCAATCTCTAA
TCCATTAAAAGTTTTTGTTTGATACTTATATATTATTGAGTTATTTTTAG
ATTTTGTGGTAGGTATATTAAGTCTGTCATTTTAATTTCGCCGTAGAATC
TGGTGAATAATTTTTATGTATTGGGAAATGTAAATTCGTCGTGATTGCAG
TATACTGTCATTGCTGAGGAATTTGTTCACAAATATGTCTTGATTGTAAG
GTAGAACCCGATAAAGTAATAATTGACAAATAAATAATCTCGATTAGTTA
ATTATGTTCATGGTTCAATAGATAAGGGGATAGTTGTAACCTTAATAAAA
TTCTCAGGTCCTGATACCACTGGTTTATAGAGTTTTCACCTTAGTTTGTG
GGTTGAAATGTTATCAATTGTCTTCTGTGATTAATTTATTCTCTTGTTAA
GTGCAAGTTGCGCAAAGTGGTTGAATGTAAATTTTGTATATGTCCAATAA
TATATGTTGAGCAGCTACTTTTATTTGGAATATAAAGATGTTCGTACATG
CTTACTGTTAACCGTTGTACAGTCTAATGGACAATATGAAGTCTTGGACG
GTATATAAAAATGTTGTAGTGGGAGATAGGAATAGAATTTTCTGTTTGTA
TTATTTTAATTTTAAAAATATTTTAGCAGTTTTGTTATAAATAAAGAAAG
CAGGATTTATATCTCTGTATTCTGGAGATCCTAAAAAGTTTTCTGGTAGA
TTAATCTGCAATTAACTAGTTATTTATTGCTTGTAAATTATGATATAGAA
CATGAAAAGAAAACATTAATAAAACCACAAGATTACCAGCAAACTGGCAA
AAGACAAGCAAAGAAAACATGATTATATATTTATATGAAGTTCATTAATT
GTAGTGAGTCATTATTCCTATTAAAATTATCGACCAGTAATCAATGTAAG
CAAGTAATAATGAAGAATGATGTGAAAATCTAATCAATTAAATAAAAAAG
AGTGAGAACTCAATCTTAATATACAGGCCTGTAATCTAACTCTTTTTAAT
ATAAGTAAACTATGTGTTTGACTAGAATCTGATAGTAAAAACATATAGTG
TATTACTTACTATGAGACAAGCATATATACTATTACACATTACACACTTG
AGTTTTTAAATTGGTAGAAAAATATTTTAATCATTTACTCACAATATGTT
GAAGGAATAATATTAAAAACAATCAATGTAATTTTCTAGGCGCCAAATTG
TGCACCCTCAGTCATAATTCCACCAGTCAAAATTAGATGCCATAGGAGCT
ATTCAACATTTATGGACATTGGTGATTTATTAGAATTTTTTTTTGTCACT
CTTTCAGAAGCTACTTATAGTTCTAAGAAGCAATGGATTTGTCTAGTTAG
AATATACTCTCAGGAAACAAACACTTTAACTAACTAAAGATTCCTCAGAC
TGATATGTTCAGTCATTCTTAGCTGCTTGCATATTATTATCCGTAATCCC
CTTTCACTCTGTGATAAGATATTATTAATATTTCTCTCTCTTAGGACTTC
CTCCAACACGCCTCTCTCTCTCTCCCACCAACCTTTGTACAAATATATAT
CGAGCTCATAGTGTTTTTCCTTCAGTTTGACAAGTTTATATGCTGAAATT
TGTAGCTGTCCTCGTTTAAATCCTCCTAATTTGTCGAAACTTCGATTGGA
TCGTTGAATTGTATTTAGCTCTATTGCAATCTCTGATTCTTCATCTATCT
GTAAGTATTGCCCAATCTCTAATTCATTAAAAGTTTTTGTTTAATACTTA
TATATTGTTGAGTTATTTTTAGATTTTGTGCTGGGTATATTAAGTCTGTC
ATTTCAGTTTCGCCGTAGAATCTGGTGAATAATTTTTATGTATTGGGAAA
TGTAAATTCGTCGTGATTGCAGTATACTGTCATTGCTGAGGAATTTGTTC
ACAAATATGTCTTGATTGTAAGGTAGAACCCGATAAAGTAATAATTGACA
AATAAATAATCTCGATTAGTTAATTATGTTCATGGTTCAATAGATAAGGG
GATAGTTGTAACCTTAATAAAATTCTCAGGTCCGGATACCACTGGTTTAT
AGAGTTTTCTCTGTAGTTTGTTGGTTAAAATGTTATCAATTGTCTTCTGT
GATTAATTTATTCTCTTGTTAAGTGCAAGTTGCGCAAAGTGGTTGAATGT
TAATTTTGTATATGTCCAATAATATATGTTGAGCAGCTACTTTTATATGG
AATATAAAGATGTTCGTACATGCTTACTGTTAACCGTTGTACAGTCTCAT
GGACAATATGAAGTCTTGGACGGTATATAAAAATGTTGTAGTGAGAGATA
GGAATAGAATGTTGTGTTTGTATTATTATAATTTTTAAAATATTTTAGCA
GTTTTGTTATAAATAAAGAAAGCAGGATTTATATCTCTGTATTCTGGAGA
TCCTAAAAAGTTTGCTGGTAGATTAATCTGCAATTAACTACTTATTTATT
GCTTGTAATTATGATATAGAACATTAAATGAAAACATTAATAAAACTACA
AGATTACCATCAAACTGGCAAAAGACAACCAAAGAAAACATGATCATATG
AATTTCATTAATTGTTGTCAGTTATTATTCCTACTCCCTCTGTTTCAAAA
TACATGTCCACTTTAGAAAAAAATATTTGTTTCAAAATTCTTGTTCACTT
CAACTTTCAATGTAAATCTATATTTCCAAAATCAACTCTCCTTCACATAT
TTCAAATTTATATTTCCAAGACCAACCCTATACCACATATTAGGTTCAAT
TAATGACTTGATGTACCTCTTTTTTCTCAAAATCCACTTTTCTTAAACTA
TGTGATTTTTTGAAAGTGGACATGTAATCTGAAACGGAGGGAGTATTAAA
ATTATCGACCAGTGATCAATTTAAGATAGTAATAATGAAGACTGATGTAA
AAGTCTAATCAGTTAAATAAAAAAGAATGAGAACTCAATCTTAATATACC
GGCCTGTAATCTAACTTTTTTTTAATATAAGTTAACTATGTGTTTGATTA
GAATCTGATAGTAAAAACATATAGTATATTACTTACTATGAGACAAGCTT
ATATACTATTACACATTACACACTAGACAAGCATATTTAGCTGAAAATTT
TCCTAAATAAGTATTCTCATAAAATTGTAGCTCTATTTTAGAATCAGAAG
GGAGAACTGTTATCAATGACCCTTTTGGTCTTTGTTTTATGAAAATCACT
CTTTACATACCCGTCATCTTGATTTAGTTGAAATATAGTATCAGTGATAT
TCTTTCTTGTCCCCCCTGATTTAGCGTCTTCTACCTTTAGTAGAATAAAC
TAGAGTGTGAAGGAAGTCTTAGAATCTCTTTCATTAATTAACCTGTAGTC
AAACATTGCCGGTATGGCAGAACTGGGCAAAAGTGGTATGCAGCAAAAAA
ACTTGTAACCAAGCTTTTTGTGATGCACTTTATTAAGTGGATTATGATTA
TAATTTTACAACAATTAAGCAGGAGACAGCTTTGTTGAATCTTTGCTGAT
GTATTTGCAACTGCATTTTTCTTTGTTTCTTGTTTATTAATGCGTCTTTT
TCATAAGAACTGATCATGGTCTAACATGTAGTATGGCTGGACAAGTAGCT
TTCAATCAATCACCTGCTCCTTCTGAGGACTTTGAGATTGTTTATGGTGA
TTTTAAAGTAGCATCCCAAGCTCAGTGTAGTCCTCTAATTGATCCTTCAA
CTATAAAACTTAGACATAGACTCGGAAGAGGTCCATTTGGTGATGTTTGG
TTAGCAACTCTTCATCAGACAGCTGAAGATTACGAAGAGTATCATGAAGT
GGCTGTGAAGATGTTACATCATGTTAAGGAAGATAGCATTAGAACAGTAT
TAGATAAGCTGGCTGAGTTATTTTTCAAGAGTAGAGGACTAAAGGGTGTT
TGTTGGATGTATGGCACTTCAATTATAAGTGGCAAGGTATGTAAATTTCC
TTCATCAGCTTTTACTGTTGGACTGTAGTCCAACTTTTTGTACTCTCTAG
TCTCTACTAAAGTTTCTATCCTTTTTCTAGATATGTATAGTTATGAAATT
CTATGAGGGATCCGTTGGTGACAAGATGGCTCGCCTTAAAGGGGGGAAGC
TCTCATTGCCTGATGTTCTGAGGTGGTGTTTATATTCTGTCTGTGTGGAT
ATACGTTTTATGGTCTTTCTATTGCATTTGAATTTATTTTTTTGAAATTT
AATATTGAAATTGTATTTTCCATCTTAATATTGATATCTGTAGGCATGGA
ATTGATCTGGCTCAGGGAATTAGGGAAATGCATTCGAAAGAGATTATGGT
CCTGAACCTTAAACCCTGCAATTTCCTTTTGAATGAAAATAACCAATCAA
TTTTGGGGGATTTGGGAATTGCATATGTACTTATGGGGATTCCATTGCCG
AGTTCAGATCTGACTCGTAGGCTTGGAACACCAAACTATATGGCTCCTGA
ACAATGGGAACCAGGTACAAGAGGTCCAATATCCTATGAGACAGACTCTT
GGGGATTTGCTTGCAGCATTGTTGAGATGCTGACTGGTACACAGCCTTGG
TGTGGTATGTCTATTGATAACATATACAAGACTGTAGTTGAAAAGCAAGA
AAAGCCGTTCATACCTGAAGGTCTTCCTTCAGAGCTGGAGAATGTTATCC
TTGGCTGTTTTGAGTATGACTTCAGGAGCCGTCCATTAATGTCAGATATA
TTAAATGCTTTCAAAAGGTACGTTCCTAATACTTGTTCCATTTTCTTCAT
TTCAGGCTCCCTGCTATTTAGCGGTTTTATCCAATTAAATTATGGTCATG
GACTGGGGCCCCAGTAAAATTAAAATTTCTTTAACTGCATAATTACTACA
TTCGATCTTATACTATACACACTTTAATAAGATATGATTACGAAATCCAT
TACTGTGAGAAGATCCATGAGCTTCGAGGTGAAGTGTTGGAACCAACCAC
AAGGTTATTAATGTGTCGATGTTGAGATAAACTGTTACTAAAAGAAGATA
TGGGTGGAATATGTGGAATCAGATTATGTATTTAAAGCACTATTTGTACT
TGAATTATATTAGTAAAATGTGCCATAACATGCTTTTTAAAGCAGCAGTT
GTAGTATAGATCAGTATTATTAAACGCAATATTCAGATAAAAAGCGCAAA
GGCCCCTTTGGAGCCGCGCAATGCGGGGATATATCAAAGACAAATAAATA
TACATATATAAATGATATATAATGTAGAATATAGTTATTTTATAGATAAG
AAGACTTTAAATTGATAAAGCAACCAAATTCATCATCATATAGATCCAAA
GTAGAACAATTTGAATTAGTTGGTCCATTTTTCTTCTTCTTCATCATCCA
TATCCACAAAATCATCATCTTCACTATATGATTCGGATCCTCGACAATGT
CTTCTTCATCCTCAAGTCGTATGTGTATATACAACAATGTATGTATGAAT
TAATCAGTATATACAAGATACTAGTTTTTTACTCTGCCACATAGTACCCC
TTGCATCTAGGTAACTTAGATCTTCATCATTAAAGTTGAAGAGATTTTTT
ACAATCCCCCACCCATGCTCAGGGGTGGCAAAATCCGACACTACTCGAAA
CCCGACACGAACGCTGACTTGAAAAATTCGAATGAGGCTTGGGTTTTTAT
ACTTTGAGCCAGGTTCGGGTTGTGTAATTTTTTACCTGAAAAACTCGGGT
CAAGTTCGCATTGACCCGTACCCGACCCCGACCCGAAATATTCATGTATA
TAATATATTATATATAATATATATCTATATTAGACAATTGCATACATTTT
TCGTATTTATATATTAAAACAAATTTATCCACTTATAATCTCATTAAATT
ATTATTATTATTATTTTAATATATTATAATAAAATACAATTTTATATAAC
AAAATTAATTAATTTTAATTAAATTTCGGGTTGACTCGAGTCATTTCGAG
TTGATCGGGTACTGAACAGGTCGGGTTCGGGTTAAAATTTTCAACCCATT
TCTGGATCGGGTTGACCCAAAAAATGGATCGGGTAAGACCTGTTACCCGG
AATTGCCAACCTACCCATGCTATCCAGTGGGGAGAAAATAATAAGTAACA
ACAAATAATAGTATTAGTTAATTTATGTCCATAAGTAATTTATGATTTAT
GCCCACATGCCGGGACGGATTTAGAAGGGGGGCAGTGGAGGTACCCACTG
ACCCTCATAAAAGATATATATATTTCTACTATCATTCTCACCAAATTGTT
TATTTGCCCCCATGGTTGAGGTGTTCTATGTTAACCAAGGAGGTACAGCT
TCGATTTCTTCTTGTTGTTTTTATACCAAATTTTTTGACCCTCTTCTTTT
CTTTTCCTCTGTTATATTTTGACCCCACTACTTCAAAAGTCTAGCTCCGT
CCCTGCCCAGAGGTATTACATGGAATGGAAAAGTGTTATGGTAGGATGGT
AGATGAATTTTTTTCCCCCCTTAATGACTACTCATCCCATAGTTTAGAAA
AAGTGGGGTTAAAACTTGTAAGTGTGATTAAAACATGAATTAGAAATTTT
GGTAAAGCATATAGTTGAATGTAAGCTCATGGAGGAAGTTTTACTTAATA
TTTTAAAAAAAAAAAGCAAAAACAAAATGGAAGAAGGTTTATTCGTTATG
TTGAAAAGGATTGTCAGTTAAAACTATTTACTATATGTAGAGCCATAGAT
CTGGGCATACCAAATATGAATTGAATGAGAGTAATATGTCAGACATCAGG
CATTTTCAGCCCAAGATGGATGGCAGGATGGGTGTCTGAATCTATGAGCG
CGCCTGAGAGTTAATTGTGATTATGGGTGTCCATGTTTTTTTCTTGTTGC
AGAACTTAACAGGGAGTCCTGGAACTCCCTCGGAGTATTTTGGATAACCA
TGTGAAAGGCTCTAGAAGCATGAGCTTTTTATAATCATCTTGTAACATTT
TATTCAACAAATTATTTTAAATAAGCTTGGTCCTATGAAATATGTTTTGT
ATTCCTACAAAAATGTGAAGATATTTGTAGACAACAGTATTAACTCATAG
GGACACATTCCTAGTGTAAAATGAACAAATTACGTTGTATATAAGCGGTA
TTCTACTAAGCTGTCACCAATACAAGTGTTATTCTTCTGCTAAATAGAGT
TTTTTGTGTGCTCTGCTTTTACTGCTTGCCTCGTTACTAGGTGGGTGTCA
AGGCTGACCTAGAGGAGTTTAATGGTTGAGCAAAAATGAGAGATATAGAA
CAATAATTAAAAGTTGTTTTATATATAAGCATAACCTTGTTGGCTGTACT
CTGTAGGACATAGTTTCACACCATATATGTATGTCCTTATTACTACATTG
TATGCTACAAGGTATATAAATTAATCTGTTATGTTAAGTAATTGTGCTAA
AAGCTTTATAAATTGCAGCTCGCAGAATGCAATATCTTCCGATGAAAGAG
GGATTGGTCTCGGCAGTAATGCAATCTTAGACAGATCAGCTACTTCAGGT
TACACTGAGTGGTTCCTTTCAAAAGATTATCTTCAAGTGGGTGATATGGT
GCGTTCTAGAAAGCTATCAAACTCTTGCAAGCCTGAGAACATGGATGTCC
CGGAAGGGTCTATTGTGGGTTTGGAGCGTGACACTGATCGGAGGGGGTTT
GTTTTAGTCAGGGTACATGCTATCCATGACCCTGTAAGAGTTCATGCATC
TACACTGGAGCGTGTGACATATGGTTTGGCCGCTGGAGATTGGGTGCGCC
TAAAGAACGTAGACAAGAAGCACTCACCGGTGGGCATCCTCCATTTCGTC
CATCGTGATGGAGCTGTAGGTGTTGGTTTAATCGGGGTTAATACTTTGTG
GAAAGGTAGTTATTCGGACCTTGAGATGGCAGAAACCTATTGTGTTGGTC
AGTTTGTAAGGGTGAAGTCAAATGTTTATAGCCCCCGATTTGAATGGCCT
CAAAAAAGAGGGGCCGAGTGGGTCACGGGGAGAATTTGTCAAATTCTACC
AAATGGGTGCTTAGTTGTAAAGTTTCCTGGTAGATTGTCATTTGGAGATG
AGAGCAGTAATTTTTTGGCTGATCCAGCTGAAGTAGAAGTTGTTTCTTTT
AAAAATTGTCCAGGCATGGTGAAAAAGTATCAGCATCTTGAGGATTTTCA
CTGGGCTGTGAGGCCACTACTTATTGCTTTGGGCCTCTTCACTGCCATGA
AGCTAGGGTTTATTGTAGGAAACAAAGTGGGAGGTTCAAAAGTGAAGAAG
GACCAGAAGCTCATATCGCAGGAAGACAGTCGTATGCATATGGATGGAAA
GAATGCCATATGGGTTCCAGCGAAGATGGATGGCCAGAATGCGGGATGGA
TTCCTCCTAATGTCGCTAATATAATCTTCAGAGATGGTGTGAGTACTGCT
TCCACTTGATCCAGAAGTTAAACCCAAACTCAGTTACAGTCAGTTGCTCA
AAGCAAGTCGCTGGACGTAAATAAAGCTATCTAGTTTATTAATCATCTGA
CAAACTGCTTATGTTCCTAAGCTACACACTCTGCAGGCAATGTCTGTATT
CACTGTTCCATTTGGTGTACTGTATATATACTTGAACAATTTCTCTCCTC
CCTGTGTCTTTTTCAATTGCCAAGACAGAAGACGCTTGGCTGTTAACTGA
ATACATAAATTTCTCCAATCA