| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017374664.1, is a part of gene, LOC108204960. |
| The genetic_marker, MK006235 K3679, is located in gene, LOC108204960. |
| The mRNA, XM_017374662.1, is a part of gene, LOC108204960. |
| The mRNA, XM_017374665.1, is a part of gene, LOC108204960. |
| The mRNA, XM_017374663.1, is a part of gene, LOC108204960. |
| 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_017374664.1 | XM_017374664.1 | mRNA | DCARv2_Chr1:12550853..12560550 |
| XM_017374662.1 | XM_017374662.1 | mRNA | DCARv2_Chr1:12550853..12560550 |
| XM_017374665.1 | XM_017374665.1 | mRNA | DCARv2_Chr1:12550853..12560550 |
| XM_017374663.1 | XM_017374663.1 | mRNA | DCARv2_Chr1:12550853..12560550 |
CAACTTCATGAGTTTACCGTGCACAACCATGTCACGCATCAGCGCTTGAC
GTTACACTATTTTGGGGCTATTGTCTCTAGTTTTCACTTCAAAGGGAGGC
ACAGAGGGCGGAGATTAGCTGCGTCTCTGCAAACTGAGCAGAAAATAGGC
CATAATCACTGTAGGTATACACATACACATACATATATGTATCCATTTTG
GTGTTGCTTATTGTGATATATTAGATATTAGTGTTAATTAGCGTTGTTTT
TTATGTTGGAATTTTAGGTTATTCTGAATTGGTTTATTGAATTGCTTTGT
ATTGATTTCTGTTAGTAATGGATGGAATGGCTTTTCTCGAGGCCCCGAAT
ACACCTTCGATGGTATGGTCTCGATTACTGTCAGCAATTTTTGGATTATT
TGCATAATTTCAATTCCTGTGGAGTTATTTGTTAATGCTGCTGCATTACA
ATGTTTTTGGGTGGAAGGTTTTGTTGCGAAGCCCTTTTGCAGTATTACTG
TGTAATTTGATTAGTTTATTGCGAGTGTGTATTTTCTTGAGGCTTTATAG
GAATTAGCATTTTAAACATTGGAAAGATTGCCATGTGAAATTGGTACATG
GTAGAGGTGGCCGGGACAAGGGTTGGCTTAGAGGGTAGCCCAAGAGCCTG
CAAAAACAATGTTTGTTGCATTTTATGGGGAGATTGAACATTTTTCTTGG
GTAACTTTAAGCTTCATTTTAGGGGTATCACCATCTTTGTTTATATAATG
GTGCTTAGGAGTTGAGGTGAGCCGTACCCGTATGCATATGTAGCACTCAG
AGTAGCATCATACCTCATGGAAAACATGTTATTAAAAGGTTGTTAATTGA
TTATTACATTTCATGGTTAGAGATGGAAGCGTTGTTGCTAATTATTACTA
CCATTTTTTGGTTTTGATAACTATTGTGTTTAGCTTTAAAGTTATTAATT
TGATGTAGGAATTTTGAGATCTGGTGTTTTGGTTTTTTACTCCTTCGATC
TCCTAACAGATAATAAATTGATGTAGGAATTTAAGCCCTTGATGCCACAC
AAATAAGAAAACTTATGCAATCAAAAGTAACAGCATTTGATGCAAAAGAC
AAATTAGATATTTATGCATTCATTTTTCATATAACACTTGTTACACGGAC
TCTTCATTATGCTTCGAGTGCTCGTGTCGGACACTCTACATTCGGACATG
AGTATTTACACTTGGACTTATTTCCAGTCAAAATCATGTAAAATTTTCAA
TGTGATGCTGCTGACACTTGGACACGTATCCATGTGGACACCTCCAACCA
AGTTTGTATAACAAAGACGTAAAGATTATTTTGTATGATCTGAGGGCAGG
AATTCTACCACCCATAGGATGACTCAGCACTATGCTAGGATTCTTCACGG
CAGATGAGAGAAACTGTAAGGATCATAACTCATAGTAAGAAAATAATTCC
GATTGTGGTTAAATTATCCTCAAAACTTCAATTCTAAATAATAGCAAAAC
AAATGCAAATTAATATAATAAATCCATGCTTCGTACCAGTTCCTCATTAT
AGCAAAGCACCTGTTTGCATTTTACTCTCTTCAAGAAAATCACTATTTAG
AGATAATATTGTTTAGATCTGGTACATGCTAGTGTATTAACGCTACTAAT
GGGGTTTCAAAGGAAAAGATGCATGTGTGTAACAACCATCTGGAACAAGA
GAAAAGGTCCCAAAAGTCACTATTTTAAGCCAAATTGACATCAATGTCAT
TTTCAAGAAAAAAGGCCCCGACTGTCACTTCAAGACACGACTTGAAGTTG
CGTTTTGATGTTTCTGAGGAAAACACAACTTGAAGTTGTAATTTGAAGTG
ACAGTTGAGGCCATTTTTCAGAAACTGACTATAGAGGCCTTTTGCTGCTA
AATAGTGACATTTGGGGGCAACACCCCTGGAACAAAGATATTATGGAAAA
TGAAAGGATAGTGGCATAAAGTTTGCTTGTAGCAGAATCATTAAGATGAC
CATATTAATCATATGCCAATTGACAACTGCTTTAACAGGACAACTGTTCT
AGCAAGTGATTAGAGGACAATGTTTACGTAATTTTGATTTTGTTGCTCAT
CTACAATGTGCAAGGCAGACATATTTGATGCACTGCATCAACCTTGGAAT
GACCAAAAAAGCTTAAGACATGTTTCAAATTTTAATTAATCTAGGCAATT
TACACTACTGTAGTACTGTTATCTGCATGATAAATTTTATATTCGATTTT
ATAAGTTTTAGCCTAATAAAACTCTAATGTGCTTGCCTTTGGTATGTGAT
ACTCACAATTAAATTTTTTTATGTTTATATCGAGTGACAAATTAAGTTGT
ATGCATGAGCAGGTACCAGAAGGAGTGCCTTATTTCATACACATAAACCA
AAATGTTTCTTCTGGGAGAAAGTAAGGTTTTTCTATTATTTGATCAGTTC
AATGTATTTGCGTTTAAAGATGGTTCTTTTCTGCAGTATGGTAGGATATG
TTATTATTTGAATCTTATGTTTGGCGTGATGGTCAAATATCTACTCGCTA
TCCATTGGGTCATGGGGATGACTCCTGGACACAGTTTTCTTTTAAATTAA
GGATTAGAATGCATGTATCAGGAACTTCTACAAAACCTCTAGAAAAAAAT
TAAGAAAAATAACAATTTTTAGCTGAAATTGACAAAAATAATGATTTTTG
AGTGTGATGCCAATTTGAACCTTTGGAATACAAATTTACAAATCGGTATC
CCTTTTGTAGAAGATACTCTATCTAGAAATGAGTCTCTCTCAAGAAAAAA
ATCTTGATACCTAACTTTGAAATGCGTATCCCATTATATGAGATACTCTT
TTGATGGTTGGGTATCCAAAGTAACACATAATACTCCACCGACAGATGCG
TATGTGAGATACCATCTGACAGTTGAGTATACCATTTGTTATATTGTCCT
CTCAATTCAAAAAACTTTATTTTGTAATTTTCCCACAAAAATGTTTTTGT
TGGCCTTCACCCAATTGTTGATGCAGGAGGGTTCCTCAAAGGTTGCAAGC
TCTACTATCAATTCATGATTATCACGACCACCACCACATAGAAAGACTTC
AGTTTCTTCTGTTCCTTGCTAGTTAACTTCAGTACCCTTTAACTATTCTG
AGTGTAGTAGTTTTTTTTTTACAACTATTTATACCTTCCCACTCAAAAGA
TGGTGGTTTATTTATCTCCAATTCAGAGATAAGTTAACATTCATTCCTCC
CCTATCGTAGTTATAACTATTGATTCGACTTTAGTCGAATTTGTTGCCTT
GTGCTTTTTTTTTATTGTGGAGTTCTTGTTTGATATATTTACAGTATATA
TGTATTGCCAAAATAATGACTTTCCGATGTAATCTTATGACTAATTAATT
TTAATATGTTTTGGCTCCGCCAGCATTGTCATGTGAATTATATATTATTT
TCAGATTGCTATTTCTTATCAGCAGTATGTGTTTTTTAGAGCGCTAAAGC
AGAACGACGATGATATTGCGATCTGTGAATGCAAATACGATGCTAGGTAT
CCTGATAGTGCTTGTGGGGAGAGGTGTTTGAATGTACTGACCAGCACAGA
GTGTGTACCTGGTTACTGTCCTTGTGGGGAATATTGTAAGAACCAGGTGA
GTTTTTATGCATCATTATTTTTGTCATTCGGTTGCTAATATATGATGAGT
TTTACACCTAATTTTAAGTAGCATATACCATTGCTTCCAAATAAGGGTTT
AATATGATTCTATTATGCCTAATAGTTACCGTGCCTGATAATTACCAAAC
TAATATGTCTGCAAATTTAATAATATTATATATTGTTCTTTTGAAAAGCT
TAAATCATACGTACGAATAAGCTTAACATGCAATGAAATTGTCTAGTCTG
AGCATTTTTACTGCTTGTAAACCATCTTGTATGGTGTACGGAACAACTTC
ACACCTTTTTAGTCGAAGATATGAGATGCTGTAAATTAAAATGAATATTG
AGCTATTGGTCTGTTATTTTTGTGAAATCATAAAATCCTGAACCAGGGAT
ACTTTTTGTTGGAATTTTTATACTTTAGTTTTCAATTCTATGTTGACTTT
TAAATTCTATATAGTTTTCCTATAAAAATTATCCTTGGTCACATTGTTAT
TTTACTGTTCCCCTGTATTTGCTTTTTTGGGTGAAATTTGCTGTGAGGCA
ATGATCTTTATTGGCAATATGCTTTTAGACATAGCATTCAGAGGGATCTT
TGGAATTCCGCCAAGTCATTGCAAGACACTAACATTTAATATTTGAAATC
CTTTCACAGAGGTTTCAAAAATGTCAATATGCTCAAACAAAGTTGTTCAG
GACCGAAGGTCGTGGATGGGGTCTGTTGGCTGGCGAGTGTATAAAGGTAA
TCTATATGCAAGTGAACTGTTATGCAAAAAAAAAAAAGAGTCAGAAACAT
GCTATCTTTTTATCTGTAAAGTTAGCCATGATCACTATATAATTTTTCTG
GCAAATAACGTACTTTCTCAGTTAGAGACTTCCAAAGCATCAAACTGTAT
AGATATCTTGGCTATATAGTTGTCAATCCTCTATGATTTAATAGACATCT
TGCATTGACAATCAATCATCCTTAACTTTTCTGTTTAAAGGCAGGAGATT
TTGTTATCGAATATTGTGGAGAGATTATATCGTCAGAAGAAGCAAAGCAG
AGATCTCAGGCTTATGAAGCTCAAGGTAAACTATATTTGAATTTAATTTT
GTTGGGCTCATATCATATTACGAATGACCAACTATCTGAATTATGATGCA
GGCCTCAGGGATGCATACATAATTTCTCTAAATGCAAATTACTTTATCGA
TGCAACTAAAAAGGGGAGCGTTGCCAGGTTTATAAACCATTCATGGTAAT
ACTCTTTACTGCATTCTAGTAAAATGAAAAAAGTTAATATACCTGAAATA
TTGGCTTTCTTGAGCATTATTTAATGTTTCGCTGGTTGTGATATTCCATT
TTTGGAGTTTTTAGTCAACCCAATTGTGAGACAAGGAAGTGGACAGTTTT
TGGGGAAACAAGGGTTGGGATTTTTGCCAAGCAAGATATAGCAGTTGGAA
CTGAACTTGCATATGACTACAATTTTGAATGGTATGGCGGTGCCAACGTG
CGTTGCCTATGTGGAGCGCCTAATTGCTCTATATTCCTCGGAGCAAAGTC
TCATGGTTTCCAGGTAAAGTTTTATTTTTTAATTATAATTTAGTTCATGC
AAATAATATTTTGTGTCAGTTAGGATTAGGGGTGTTCATGGGTCGGGTTG
GGTCGGTTTTACCCAAAACCCTAACCCGACCCATTATATTCGGTTTTAAT
AATTTTTAACCCAATTAAATTTTGGTTTAAATTTTATCGGTTTGGGTCGG
TTAGAATTTGGTTCGGGTTGGCTCGGCTATAATACAGTTTTATTTTCTAC
AATTATATTATTTGGTTACAATCTGTGTGTTTTGATTGATAATGCCGTAA
TTTTTGGTTAACTTCAGAGTAAACCTCCATCAATGTTCATACTCCTCTAC
AAAACAAAAAAAGAAATGCATGTTTCAACAGTCCTAGCGTCGTGAACACT
ACAATACATAAACTCATATAAATATATGTGTGCTTTCAAAAATAGATAAT
AGACTCCGAAGTCTGAAAAACAGATAACAGATTCTTCACTTAGGATAGAA
AAACTATGAAACTAGTATTTGTTATTGACCATCGTAAGAGTTTTCATTTC
AAGTTTGCAATTGTATAGTCTTCTTCACCGTAAAAGATGGGTTGAAATGG
TGTACCACAAGAATCTGCCCGTAAATATTTTAATTCCAGATTGTACACTG
CAACCAATAGAGCCTTAGAAAAATTTAATTAGAACTTATGATACTTGAAA
GAGAAGAACAAATCTCACAAGTTTTTATCTAAAGTAACATAGTTTAAGGT
CCAACTGGCACAGAAAAATTGTTTAAAAAAATTAAGCAAGATCCGAACCC
TAGAGACTTTACTCCTTTCTCATTTTAAGTCTCCTTACAACTTAGCTAAT
AAATTTTACATGTCAAAACTTGCAAAGAAGAACCTTGCAAGTATCTAGTG
CGGACTCCTTTCTTAGGCCCAGTGTGGTCGCTCATCTTTTTTTTGTTGTG
GTGCCCTAACATGCAACTCTTTGAATCTAGAGAACTTGAAACCTTTGAGT
TTGATGCAATCGGTCCATGTAATTAAATCCATGGAGAAAATATATGTGAC
AGATAGAAGAAAGTCCGAACTCCAAAGTATAGAGACAAGCTGACAGACAT
GAAGCCTAGGAAATCTTAAGCGGGTCAATACAAGAGGCTTGAAAAGTTTT
AAAGTACTTATTCTGAGAAGGAATATTTGTCAGATAAAAACTATTTACAG
CATTATCTTATATTTGGTTTTTGTTTCATTTTATAAAAATAATCCTTAAG
TCTATATTATTTGATCCACAAGTGGTGTGCACTTTTTAGATAGCTATTTA
TGCAAAATCTGTGAGATTTGTTTGTTAAGAAATAATGTGTTATTGAACTT
CCTGCGGGAAAACAATGGATTCTCCTGATAATCCCTTCTCAATGCAAATT
CCCATTAAGTGGTATTAGAGCACAGCTGATCCGGTCCCTTGTCTTAAATA
AGAAGTTTCCTCTAACCAAAACATAGACCCAAACAATTCCTGAAGGACAT
ATTAACTTTCATATCTGATACATCTGAGTGTTGTGTCCCTTCAATTTTTA
TTTTAATTGGAACAAACACAATTTACATCTAGGACCATATGCGTGGCCAA
ATCTACGTTGCCCCGACTCTCCATTTTTGTCCTAATACCCGTGTCCACAG
GACATGACATGGGTGTGGGTATGGGATCTGAGTTGGATACTTCTTATTAA
AACCGAACACTTCACCTTGTAGCATCCCTGTTTACAATGAATATAAGGTC
TTTTAACAACTTGAATGCAGAGAACAAGGTCCATGAATGAATTGTTTATA
TGTTGTTCTCTTGATTCTATGCTACAATTTAACATATATAATTAAGTTTA
TGTGATTTATGCTAGTAGACACTAGTTCTATGAATGCACAATAAATCCAT
AGATAAGTTTTACTTGCATTAAGCTTACGCGTTGAGTCCCCGCACCGGTG
TCTAATTTCGGATCCATATCCAAGAATCCTAATTATCCTAAAACTAAGAT
TCCGACTCTTGTATCCTCACCCGTGTCCAACACTCATACCCAAGTCCGGC
TAGCATGGGCCAATTGGACGATATGGCATTTGGGCGCACTCAAAGCTGAT
CGATGGCATGAACGCCACAATCGTGTAATTACTTGTATATTATAATACAT
ATAATTGATTACTTCTTCTTTTTTTGTCAGGAGCATATAAATTATAATTG
ATTAATTATATATCATGATAGATATAATTCTCAGATTCTATATATATGTT
ATCTGATTGTATACATAATTTTTTTCCTTTAAAGAGAACAGATATTGATC
ACCTGCAAATATATACTAGGTGCGTTCATATAGTCCTGTTTTGTGGTATA
ATGTCAGCTATAACATTTGTTGAAGTTCCTATCATATGCTCTCATTCTTA
TTATAGTTTTTTTCTCTTTCATGTTTTACTGTAAACGTAATAGGAGCATA
ATCATGTGTGGGAAGATGGTGATGACAGGTACCACTCCATTTAATAAATT
TTATCTTATATACTTGTCTTCCTAGCAACTCCATCCACTTATATCTCTAT
ATGTTGTATATACTTGTCCTTGCCATCATCAATTTAAGTAACTTTATTAA
GTGAACGTGGATCCTCTAATTCGTAGATTTGAACAAGAGCTCGTACTAAT
TAGAACTGAATACTACTACGACTTTTTGATCACTCTTATTCATACAATCA
GATAAGCTTCTCATAGATCTTTTTTCTTGTGAAGGCAAGAACCCTACCTT
GTTTATGGGATACAGAAGGTGCAAGGACTGTGCATAAACTAGCTAGAGGC
AACCTCAAAAGAATAGTTTCCTGACATAATCCGAAAGCGAACTTGGAATA
AAACTATAGATGCAACAAAATGAATAGTTACAGGCAAAATGTAGTTAATG
TAGAACTCATCCAAGCATGTCAAAAAGTAAACTCCACCACTCTTGGCTTA
TGAAGTTTAAAGATCAGTTTGAATTTCATTCATGTAAATCATGAGAAAAC
CCCACCATCTTTGTATGCACTAATTCAAGAATTAGTGAAGTAATATCAGT
TTTTGCTAATGGGACTGATCTCAAGAATAAATGAGTAATTTTCTTAATTA
GCTGTGCTGTAATACTTTTACTGAATACTTCTAAATGCTGGCCTGCCGGT
TTGTTTGCAGATACACGGTAGACATGTTCCCGCTTTATGATTCTGCTGAG
GATGAGCCTTTTACAAAGCACTTCGATTCGGCAAGCTTAGCCAACACCAT
GTACACAGCTTGTGGAAACAAAGATAACCCAATGAAAGTAGATGGCTTTG
CAGAAACTAATCACTTCATAGAGCTCACCAATATCATTTCTGAGCCATTT
GGGTCAGCTGCAGTTGAAGGTCCTCTGCCTATTAATGCAGTGAAATCTGA
AGTAAAAAAGGAAACAGATTTGTTTCCGGAGAAAACTCAACAAGATATTT
CGCAACCAAGGCTAAGCTATAACTCTGGATCTGGATCGACTCCAAAAAGT
AGAAGTCAGCATGTTCCCAAGAGTAGGTCAAAACAAGCTAGCAGAAAACA
GGTCAATGGTAAAAATGTTGCAAAACTATTTGCTTCGAAGCAAGCACAGG
AGGAGGTCATCAGATGTGAGGTACAAGTTTTACTTTGTGCGAGTTTCCAC
TTTCTTAATGCAATATAGTAAGGGCTAATCAAGAATTTTGAACAGAGTCC
CTCTCATGTATGATCTTGCTTTGCAGTTTTCATTCTTTTCAATGTTTTCA
TGTATAATTTTTTAGTGGTAAAGGGAAAGCTAAATCATAAGACACTTTTT
TTTTGCTGAATTATAGAACATTTCATATTTCATTGTAAACGGTAAATAGT
AATCATATGAAATTTTATATTTCCATTGCATTGCTTAATGAGGCTGCAAA
CAGTTATGAAAATGTTGTCATTTTAAAATTTCTGAAGTGTTTATCTTTGA
GGACTTTCTGTCTCCGCTATCAATTTGAGTATTCTAGCGATTTCACCAAA
AATGTGCTGGTTCTCACATTCAGTGTCAGAATTTAATTTTTAACACAAGC
CTTCAAAATGCAGGAACTAAGAACTGAAGCCACCAAAAAGCTCAATGACT
TGTATGATGAAATACGTCCTTCCATTGAAGAACATGCCAAGGATAGCCAA
GATAATGTACCGACCGCTGTGGCAGAGAAGTGGATAGAGGCCACCTGCAC
GAAGTGGAAGGCTGAGCTAGACCTGCATTTCTCTATTATAAAAAATGTTG
TATGCCCTCGACCACATGCAAATGAACAAACTACTTCTGCTGAAGGAGAC
CATTTAGTCAAACAGCTGATAATGTAGTGTAAACGCCTTTGTTAACTTTG
CTTTGATAATCTTGACCTTGCTTGGCAGAACATAATTAGTTCATAGTTTC
TCTGGATTTAGCCTCTTGATTTTTGATTGGTGGCTTTTAAAAGATCTCAA
ACGGATTCGGCCAGTACAATACTGAGTATTATTGAGCTTTTTTTTTC