| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017371218.1, is a part of gene, LOC108202703. |
| The genetic_marker, MK006422 K3866, is located in gene, LOC108202703. |
| The genetic_marker, MK006423 K3867, is located in gene, LOC108202703. |
| 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_017371218.1 | XM_017371218.1 | mRNA | DCARv2_Chr9:10623670..10632718 |
GACGCAACATAACAACTCCGAGCTTCATACGCACGCTACACCTGTACGCA
GTGAAGATACCCACAGCCACACTCCGCAATAAAACACAACACAAACACTC
TTCTGTTACAACCAATTTATAGAACGATGAAAGTTTCCGACGAAATCACC
GGCGATTGCGTCGGAAATCGCAAAACCTTCAGTTTCTCGTCGAATTGGAC
GATCGCGAGTGGCTCGTTTGACGATTCCGTGAATTTCGAGTCGTCCGAGT
CGCCGATCGACGCGGATGGCGTCGATTCAGCGGATAAAGCGCCTCTTGTT
CTCAAACCTTCAGAATCGGATTCTTCGCCTTGCGAAATCACTCGTGAGTT
TGTGAATCTACTGTTTATTTGTTCAATTCACTATTCATAAGTGTGAATTT
GATGTTTTAGGTTTAGGTTTTGGTTTATCAATTCGTATTATTTTTCGATC
ATATGTTGTGAATTTTATTTTCACCGAATTTGTTAAGATTTTGGTGGAGT
TTTGAAATGTATTAGTTTGATCAGTTTTTAAATGTATCATTTTGATCGAG
TATTTTGGTATGGAGATTGGCTGTTATTAACCGGATCAAGGTAGCTACTT
TTATGAATCAGTGTCTTTAAGAAGAGGATTATAGGTAAATGAAACTAATG
TAGGGCAGGAATTAAAATCGAGGAATTATGGAAGGATGGTAAGGAAAACC
GTAACAGTAAGTACGCATTAATTGCGGATATGACTACTTTGTTGGTTTTG
ATATTTTATAAGAGTGGGAAAGTGTGTAGATTATAGATGTAGTGGATAGT
TGAACAGCACGGTGAAGTTCGAGGAACTAAATGACTTGCATGAATGATGA
AGCATATTGACGTGGCAAATAAGAAAATGTGTTAGTTAAGTATGACATGA
TACTAAACTGACATGGAAAGCTCTGGTAATTTAACAAGACAGAGTTTATG
CAATACTTGGGTGAAACTAAGAGGTTGCCGTAGCTTATGGAAGTCAGTTT
GGTGTTGCCTGAAGTGTATTAAGAAGATTATGCAACATATTGAACTATAA
GTCAGTTCTCAGTTCTATGCGCTTCTATTTATTTTCCAATATATTTTCCA
CTACCTTGATTGTTCTCTATCTTTCCATCCTTTTGTTTTGTCAGAACCTC
CAGGACCTGATAACTTGGCCCTTCATTTGAAGTTTGAACCTCTGTGTGGC
TAAGCTCTTTTGTCTTCAATTTTTTCTATTTCTGTATATATGTTATCATA
CACTTATCTTAATTCTATAGCTCTTGACTTAGTCGAATATTCTATGCTTC
AAGAGTTTCATATGAATCTATCTCACCATGATATATCTCTTCGTAGTGAG
CCATGAAATCACATTTCAAATTATGATTACAGTGATCCCGCCAAATGTTA
GTTACAGATCAAGTGTTTCATGCTAATATGTTCTAGCGTCCATGGACCAT
CAGTTCATTTATAACCGTAGGAATTTATGGTTCAGGCAGGCTGAACTAGT
GTGGCACCGCCACTGTTGTCACGACTGCTCTACGACTAGTGGACTAGTCG
GTTTTAACTGGTGAATTGCTGACTTGGGCAACCGCCTTGTCGACTAGTCG
GTTGAATGGTGCAAATTAGGTTAATAGTGAATAAAAAACAGAAAGAAAAC
GTTCTTATGTTAAATTTTAGCCTTCATGTACATGCTCATCTCAATTGTTT
TTCTTCTTACTTCTATTCCCCATTGAACCAAAACTGATATAAATGTGTGT
TGAGCTTGTATAAATTGATTAAAACTGATATTGATGTATGTATAGTGTAT
ATATATGTACAGTCTGTGTATGTATATGTATATAGGCAATTGCTCAAATA
GAAACCACTAAAATAAAAACTAAAATGGAAACCAAGAGAAACTATACCTA
AATGATCTCACCCACCCCCCTATATGTCATCATCCACTTAGGGCCACCCT
CACCCCCACTCAATCCACCCCGGGCCCGCTAGGGCCTCGCCAAGGCTCCT
CACAGGCCCTGGCCAAGGCTCCTCACAGGCCCTGGACAGGCTCCAGACAG
TCTTAAAGAGCCAAACTTTGGCCCCACCTTGGTCCCACTAGGCCCCGACC
CGGCCCTATTAGACCCCGTCTAAGCCCATCTCGGGGTCCATCCTCGGTCC
CAAAACCCGCATCATTCTACTTAATCGCATCGGTTTCTATTTAGTTTCTA
TTCTAGTAGTTTCTATTGGAGTAGGACCCTATGTGTATATATATATATGT
GTGTATATATATATATATATATATAGATAGATAGATAGATAGATAGATAG
ATAGATAAATAGATATGTGATACCAAAATTTTTGATGTAAGAAACCACAT
ACATGGGATAGATAAGATATATATTATTTAATATATTGTCGACTAGTTGA
TAAGCTGGACCTCCCACAACTTGAGTACTGACGACCATGGGCACCACTGG
TATCTAGTAGCAAACAAGCAGTGCCTAATCAATTTGTGGAGAAACTAAAA
TTCGTAAATTGTTCATAATATTTGAATTTATAAGAAAAATATTTATTTTA
CATATAAATATATCAAAATTAAAATTTTGGAACTGATGCAATAATGTATT
CAGATTAATATACAATAAACTAAAATTTATTGCTCCATATAGAATTCTCC
TGAGAAACAACATCCATATGTTACTTGAATATATATATCTCGCTCAAATG
TGATATCTTCAATATTTTGTACAAAATAGACAATACATAATGTAATTAAA
TTTTCGTTAAGACAACTTCATTATTTCCACTAATATAATGACCTTAATTT
CATGTTAAGACCACAAGAGTTTTCTGTATTTTCACCCTTCTATTCCATTT
CCACTTATCCATAATATTTTACTAACTTAAATATAAAAACATTGATATTT
TACATATATAACCTCTAAAAAGTTGTAATAAAACTTTTAAACCCAAAATA
AAATGATTAATTCAGAAATTTTTTTTGCTAAATATAATTCAGAATATTTT
AATTCTTAACTAATTAGGCATTAGGCATGGTTACATATTATGTTCGTTAT
TAAAATTTTATTCGGAGGTATTTATTCTTTTTAAGTAAATAACTAATTAG
GCGTTAGGCTAAGGTTATATTTTAAATAATATTACATATGTTTAAACTAT
AATAACTAAAGTAAATTGAATTATCTGGGATATCACAGTGCACAAATCTT
GATTTAATTCCTATGTCTTCTTTAGTGTGCATGGTGTCACATTATTGCAC
ATTATATGTCGGTAATTATTGCTATCTTTTGTAGTGTCGCTTACACAAAA
GCACGAGATCCGGCAAGTTTATGTGCGAAGTACTGCTCGTACATATGAAA
TCTACTATAAACCTGATGTGCACAGTAGCAATGAGTATCTGTGCACCGTT
CGTTGCAGTACTGCTTCTAGAGAGGATGATTCACTTCATGAAAGCAACCA
TGGGGAAGGTTCTACCGAACCTACTAAGGAATCTGACAGGGATTACAAAG
AAAAGAAATCGCCCAGTAGCGCCAATGAAGATGGCTGGGTTGAGGTGAAA
AAACCAGAGTCACCTGTAGAAGTTATCAAGTCCATGCCAAAAGCTATTTT
TGGTGATGAAAGAAACCTCCAGGTATGGAAATTCAGTCCTGATGGTAATT
GTTCAGTTTAATCCCATTGTGTCCTTGTTTACTTAACAAATGTACTGAAG
CTTCTTTGGAACTGTCATGCTTGTTTACTAGTATTCTTAGTTTGTTTGGA
CTTTTGACACTTTACTTGTGTCATGCTCTGTCTGACAGAAGTTTATAAGA
AATTATTATATTGTAGAAATTATCTTAAGATGATAAGTGGGTAAGCAAGC
AATTATTTGACCAACAGGATACAGTTTTTGATGAGGGAATCATCTCTAAG
GGGTCAGAAGTAGAGGTAAGTTAATCAAAAGGACATAGTTACTTATTTTG
AGTATGCACTGATCCTGATTTTAGAAGATAGACTGGAAGTGCAGATTTTG
TTGCTTGGCTCTCCTAATTCTATCATTAGTTTGTTGCTTGGTTGGATTAA
ATGGAATGAGGTAGGAATAGTATTGAAAATAAGGTTACATTAGATAGAAT
GATCAATTAAGTGAAAATGGAAATATATGGACAAAATGTATAAATTAACG
ATGAGTTCTGTGAAGAATATGAGTAGCATTGTGGGAAATTGGAACGGGTG
CTCATCTCAAAAAAGGGAGCATTGAGCTGAAGTTAAATTTTTTTGAATGG
AATTGATGAATGATTCACTATACTGCAACGATGTTCATTTATGTAGTTCT
TGCTTCATTTCATCCATTTTACTGAATATTGCATAAAAGATTTCTTATTA
TGTGATGTTTGGTGTGTGTGACACATTGGTATTCTAGTCCACTACTTTTT
TCTCTTTAACTACATAATTATTTAGATTCTCGTTCTTGAAACTCAGATAA
ATGTGTTTTTTAGAAGTAAATGGATGGAAATATTCATCATTAACATGAGT
ATTGCAATTGTTTAACTCTTCTGGATCCAGTAGTGATCAAATTATGTATC
CCATGGATGGTTAGCAGCTATTTATGTTTAATTCTCTCCTTATTTGTAGC
CTCTATTTTAGTGCACGGGGTATAGGTTGCTGGGACATTGCTGGGGTTCT
TTTAAGTCTGATATGTGCTGTAGTTCATGTATGACTTTGCAGTGCTACAT
TGTGTTGCATTGCTAATATATCAGAGTCTCTGTTTATTTCTTTTTATGGT
AAAGAATTGTAATCCCAATATCCCATGCTAATTATCTGTTATATTAGTTG
AAGCTCCTCCTTAGAATGGTGACACCTTACAAACTGTGTGTCGTGGATAT
ATTGACCATATGATGATTATTGTAATTTTTTTGCTTTTATTTGTTACCTA
CCCATTTTCCAGTTTTTTAGCCTGTAATGCCCTTCATTTTTATGCCTAAA
AAAATTGTCATAAACTAAGACTGTATTTAAATTCTGGCCAAATATATGTC
AGGCAATACCTATTTAAATATTATACATTATACATGCATGCATACATACA
TACATACATACATACATATATACACACACATATATATAGGGATAGGATCA
AATAAAAACTTTTTTAAGTTGCAAACTTACAAACATTTTTTTTTCAATTT
TTTTATTCTCCCATCGTGTTAATCCTTAGTTATCGAAAGTATTCATGTTG
AAAATTCTTGAAAAACCATCACGATTTTTAAAAATAACGCATAAATAAAT
CGTGCATTTAACACATTTGTAACTGGGGTTCAACATCGGGTGTAGAACAC
TAATTATCATTGTGTTGAATATATCTATAAAGATGCTCAAACTATACCTC
TGGGGTTTGGGTAGGGTCTAGAAACATAAATATTAGTTATATAATACGTT
TAACTTAGTTCTTACATTGAAAAATTAGTTTATGTACTTCTCCAACACAA
TTTTAATCGATGTTCAACAAAATATGTTAAAAAAATGTTGAACTCAAATT
ATATAGGTCTTGAACGCATAAAGTTTGTAAGTTTGTACCAAAATTCGCCT
CTACATACATATACATAGATACACACACACACACACAGATATTCTTAAAG
TTATTAATGTATTTATTGTCTGTGATTCTCTGGATATCCACTTTTTGCCT
AATGAAACAGGTTAATAGATGTCTTGACGTGATCAGTTTTGATCACTGGG
TGGAGTCTCCATTACCATAAAAAACGATCTACTGAAATATTCTCTGCTTT
GAGTGGTTGAAAATTGAAGACCGTAATTTTAAACATGTATGTTGTGGTCT
TCTGTTTGTCATTACTGATATAATTTTTTGAAGCTAATAACATGCAAATT
ATCATATGTAAGTAGAGAAGTACTCACACAAGTCTTTTCTGCTTATTTAT
ATGAATAGTAATGTTCCTAATGTAAGTGGCTGTTATTTGACAATGTATTT
GGAATTTTGCATCCATCACTTTGCGACTTGTCTGAAATTGCAATTAGGAA
CAGAATGTTGCTTATTTCATTCTCCTTGAATTAGCAAGCAAATAAGATGT
TTGAGTGGTATTGTGGCAAGGAAGTTAAATAAACTGAAGTTAGTGTAGGG
GGTTACTGCACAAATTTGAAACTAGTGATACGTACACACAAGCATTTACA
TATACATCTACTGATTGGTGAAAAATCTCCGCAGGACTTCTATGAGGCTA
CAGCAGAGATTTCTGATGGAGAACCTTCTGTTACCCTCATCATACGTTTG
CTGTCACTTGAAAACAAAGGACTTGTATATGTTGATGAAATTTATGTGTA
TGCTGATGCTGTGGAATCCGCTGATTTAGATAATTATGCAGCTCAGAACC
TTCAAGGTGGAGCCTTAGCTGGGAGTTCTCTTATGACTATGTTTCTCCCT
ACCCTTTTGCAATTGACAAGGTCTAATGTTGGCCAGTCACAGAATGGACT
CAATTCTAGGAAAGTGGTCGAAGAAGAGTCTGCTGAAAGGTCAAGAAATA
TTGACTCGACAAATTATTCAAATGAGCATTATAAAAGATCCAAAGTTCTA
GACCGGCAGGATGCTGAATTCCAAGAAGTTACAGAGGTGACAGCCCAAGC
AACTCCCCAGTTCAAAAATTTGGCACCAAATGTAGAGAATCCGGGACAAT
ATCATTCTGTTGTGGATTGTAATAATCATGTTGGAAGAGTCATGGAACAA
CTAAATTCTCGGATGAGCCAAATTGAAGATATTTGTTTGAGGTTTGAAGA
GAAGATGGTACGCCCCATAAGTAGCATGGAGGAAAGGCTGCAGCGATTAG
AGAACCAGTTGGAAACAATTGTGAAGAACACCCAGACTTCTGAACTTCAT
TCCTGTGCAAGATTTTCTGCTCCTGCATTTTCATCTCTAGACTCCACCTC
CAGCTCCTTCTATAATGATGGTTGTGCTAATCCTCCTCATGTACAGTCAG
AAGTGGAAAAACATGAGCCCTCTTGCGATGATATATCTAAGTCAACTGAA
GAGAATTTTAAGTCAGGAAGGGCTCCTCAGTTTATCCCTAGTTATGTGGT
TACAGCCCCTGAGTTCTTATGTGACGAGGATGATGAACAGAATGATGCTG
TGGCACCATTGAAGGATTCTCCTGGCGAACTACCAAAGAAACCCATGTCT
ATTGATGATGCATTAGCTGCGGCACTTGCTGGTTTTTCATCTCTCACAAT
CAGTGAACCTCAAAAACTTTCAGAAAAATTTACTAAATCTCCAAACGAGG
AAATTGGCATTAATGAGGATTCCTTGGATAGACCGCTTGAAGAATCCATA
CACAGGGCCTCGAATTTTCACAGGGACTTGTTAATGAAGAATCCATGCAC
AATGAATGTAGACGTGGAATTTATCAATGAAGAAACTGCTGGTGAAGAGC
ATTTGAAATATACACAGGGCCTCAAATTTACAGCCCCTGATTTTGCGAGT
GAAGATACTATCTGTGATGTCAAAGTCCTCACACCTGGAATCGAAGATGT
AAACCTTGTACATCCTTCTAGAACTTTTGCAACTGATGGAGGTGAAAACA
TACTTGATATAACATCAGCACCCAGCAATCTTTCTGCATTGGAGAAGGAA
GAAACAAGTATTGTTCGTAAAACCAATGTATCAGAGCAGTTCTGTGAAGG
TCAGACTGATGCTGACACTTTCGGTGGAGCTAATAATTCTGTGTCAGTTA
GATCACAAGGTGGCTATCCGGCTACAGAAGAAACCAGCGATCTTTCTGCA
TTGAAGAGGGAAGAAACAACAATTGTTTGTAAAACCAATGTATCTGAGCA
GTTCTGTGAAGGTCAGAGTGATGCTTACACTGTTGGTGGAGCTAATAATT
CTGTGTCAGTTCGAGCAGAAGGTGACTATCCGGATACTGAAGAAACCAGC
CTGCAGGAATCCAGCAGCCGCAAAGATGAACTACCGATATGGGAGCGGCT
TGCAATTTTACAACAGGTGCATGAAAAGAATAATGCCACTGTTGGCACTA
AAGGGAAAAAATGTGATGAGAGAGACGAATTTGTGAAACATATATTAGCA
CAAAAAAATTTTGTGAAACATCTGCTTGCAAAGACCAAAAATAGTGTTGG
CACTGCAGAGAAAAATTCGGGTCCAATTTCTATCTGCGAGAGAGTCGAAC
TTGTGAAACAGTTGCTTGCAAAGACCGAGGACACTGCAGAAAAGATTTCT
GGTCCATTATTAGAATGTAGTGAGGGAGGCTCTGGCAATGGCTTTTCTTT
AGGTAGCGTGAAAGATGACTACTGGGCTACAGGAGAGATTGGGATGCTGG
AATCCAGTAGCAGCAATATATTGGACAGAATCAAAATTATTGAACAGTTG
GGTGCAAAGATCAAGGATGGTGTAGGCAGTAAAGAGAAAAATTTAAGTCC
AACTTCGGAATGTGATGAGAGAGGCTCTGGAAATGACATCTCATCTTGGC
TGGATTTTGAAACTCCTATCCTTGAGGTTAAATTTACTTCCCAGGAAAAC
ACCAGTTCTGAATTGTCTCTCAAAGCCCTGTTGACTAACACTGAAGCTGA
TTCGCAAATTTCTTTTACCCAGAAAAGCAAAGACGATGAGATAACTACAA
AAGAAAATGATTTGGGTTCGGTGGTGATTGAAGAAGGAAATCCGACATGG
GAAAGCAACAACTTCCTTTTGGTTGATTTGGAAAGTTATGATGCACCTGT
TTCTTCAGAAGATGTGGCTGGACACCAGGTTCCCCTCGACATCAAGGAGC
ATGAAGTATTACCAAGTCTTATATGAGGCCTGGGTAGTGGATTGTTGGTC
GTTTGTAAATATATCCTGACTAGGTGGTATTACTGCAATCTTTTGTTGTC
CGACTGCTGGAACAAAGTTTCGTTATGATGGTATGTGTGATATTACATGC
AACTTATGTATTTCATTCTCGAATGTCCATGATACTAAATTAGGATTTCT
GAAGTTCATGTCAACAACAATTAGTGCCTAATTATAGGTTTGGTGTCTTT
GGATATTTGCCTTTTGTGAATATAAGTCTCTTTTTATAAACTCAAAAA