| NCBI Gene |  |
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| Relationships |
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| The mRNA, XM_017367012.1, is a part of gene, LOC108199265. |
| The genetic_marker, MK009850 8_25317418, is located in gene, LOC108199265. |
| The mRNA, XM_017367013.1, is a part of gene, LOC108199265. |
| 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_017367013.1 | XM_017367013.1 | mRNA | DCARv2_Chr8:25316412..25323565 |
| XM_017367012.1 | XM_017367012.1 | mRNA | DCARv2_Chr8:25316412..25323565 |
AAAATTCAAGAGAAGCAGAAAAACGAGGAGAGAAGTTCTAGTGAGAGAAA
CTAACAAAACATCGAAACAACACACTATCCTCTCTCCTTTTCCTAGAGAG
AGAAACTTGAAAAATCTCATCTTTTTGTGCTCCAGTATTCAGATTCGCCG
GAAAATACTCCGTTTCTTCATTTCCGGCCGGCGAGTTCAGCTCAATTCAC
GAAATTATTACTTACTCTGATGATATATATTTGTATATAGATCGAGAGAG
TAATGGATAGGATTAGAGATGGGAGACGAGCTGCTGCTTCGAATATTCTT
AACGGATTATCGCGACGGCGTCATCGAACTAGCTCTTTTAGAGATTCACC
TGGTAATTATAAACAGATCTGTGATTTTATGATTTTGTGTTTTTATATTG
TATTGATGTGGTGATTTTGGTGCAGAGGACGAAACGGAGATGCATGAACC
AGCGAGATTGAGGGAGAGAGGAGTGAAGAAAGATCGAGAGAGAGATCGAG
ATCGAGAGAGGGAGCGGTCGAGGAGTAGTAAGCGGAGAAGAGCTGACAGA
TTGATGAACGCCGCCGATGAGAGCTCGGAGGAAGACGAGAGTGTAAATGA
TGAAGAGGATGAAGATGATGATGTGTCCGCTAATTTCTCCAGGATGTTAC
CGCCTCTGCCTACTCCGATCTTATCGCAGCCGTCGATTTCGAGTAATTAT
AATAATCATAACAATTCGCATAGTTATAGTCATAGTCATCATCAGAATCT
GAACCGGAAGAGTTTGTTATCGGACGGTGGTAAGATGTATAAAGCGGCTG
TTCCGGCGTGGAAAGCTGCCGCTGATGAAATGATTGGTGTCTCTGTTCCG
AGGAAGGCCAGAACTGGTATGCTACTCAATTCTGAGGGATTTGACTTTTT
TGTGTGTTTTCCAATTGATTTGATGGATGTTTGTATGTATTGAATTGCTT
TGCTGTTTGTTTGCAGCATCAACGAAGAGGTCGCATGATTGGGTTTCTAG
TGGTGGTGGAGGAGAGCAGATGAATCACCGGCAAGCTTCAAGTTCACCGG
TTAGAGGAGGAATTGCTATGTCAACGCAGTCTGGGGCGGTTTTGAGGGAG
GCTGCTCCTTTGTCGCCTCCTTCATCTTCTAATGTTTCAATTAAGAAGAA
AATTGTTAGTGATGATTTTTTTGGAAAATTTGTGATATTTGATTTGTTTT
TGTTATATTTTAATTTACTGATTTTTTTTTATCTGTATAGAAGCCTAGTG
GTGGAGTAAAGCCCAGACCACAGCCACGGTCCACCACAACTTCAAAGTCT
TCGTCTTCAAATAATAATCCGGAGGAGCTGGAAATTGAGATTGCTGAGGT
TTTGTATGGACTCATGACTCAATCTCAAGCTCCTTCGAAAACTGATTTAT
CGTCCAAGAATGAATTTAACAACATATCTAGCAGTGAAGCTAAATCTAGA
GCCTCTTCTCCGGTTTCTAATTCTTCTTCAGCAGCTCCGGTGACCACTGC
TGGTGAGTTGAGCTATTTGGGGGCAGCTCCTTTATATATACACTTTAAGG
ATTGAGTGATTTAAATACGTTATGTGTCACTTTTTATTATTTTTCAGCTC
CGAAGAGGAAGAAGCCACGACAATTGGTAGATAATAATTTAGTGGGTCTT
TCCGGCACACGGAGCTGTCCAGCAATGAAGGTAGAAATTGATCAGATGCC
GAGGTCTGAACTTTGTCCTCCGAATCTGGAAAGAAATCCCGGATCTGTAG
CTGAGAACGGCGAATCTGCAAATTCAGGTAAATCTGGTGCTGAAGCTTCA
AAATCTATGAAGCTGGAAGCTAGCACGTTGTCTGAATCGAAGGTGGTTTT
GATGGAAGATGCCGGGGAAAGCCGTGATGCGGTGTCAACAACCAAGGAAG
AGGTAAATTCTATCAAGAAGGATTCATCCGTGGTTAAGTTGAAAGATGTT
CCCAAGGAGATGATGGTGACATCGATGGCGACATCAACTAATGTGTAAGT
GCCTAATGATTTCTTTTGTTTGATATTCTGTCTAGTTATTTTTATGTTAC
TAATTCTTTTTGATGGTTTAATTTTCAGGAAAACAACAGCTCCAACAATT
GAGAAGAAACGGGAGGATAAATTAAATATAGATCTAATGGTGAGTATAGA
AGATTCAAAATGTTTTTTTTAAATTATTATTATCATTTTCTTTGTAGCTG
ATTTGGCCTTCTAATTTTTACAAGTTGCCTAATTATGTTACTGATTGATG
TAGGCTCCACCTCCTCAATTAAGATCATCACCTGAAAGGGACAGAACTGT
TACTTTTATGGGTGAACCAAATAGGATGGTTTTTGATATGGTAAGCTAAT
ATACATGTTGTAGGATATTCTCATCTCCTTTATAAATTTTATCCATGTAA
TGTTTTATTATTCCTTTCAGGAAAAGAAGGGAGAGATAAGTAAATCTAAA
GAAACTGACAAAGTGAGAATTAGCAAGGAAGAGACAGTGATCCAATCTGA
TGAAAAAGGTGCAAAAAAGACAGTAATCGAAGAAACTGAATTCCCAAAAT
CATTTGTTAGCAAGGAGAGGAACATTGATCTCAGCTTTGATTTGGAAAAG
CCGGGTATTGATACTGTAAACAATACTCAAAATGATCTTGCTGCGAAATC
ACAAGTGCAATACTCTAAGGCCACATTTAAAGAAGAGCAAGAGCAACAAA
ACACGGACAAAAGTGGTAGGTTATCCTTTGGTTTTATTTCTCAAGTTTAA
GTCAAACTGGTCGTTCGATAAGTGAATAAATTTTATCCCCTCTTTCTTTC
GCAGTTCAATCCATCTCTTTGCCTCTACCCATGCCTGTGTCTAGTTGGCC
TGGTGGAATTCCTCCTCCAATGGGGTATGTGTTGAAGATATATGCAATGC
CTGCTGCACATCCATTATATGTTCACTATTAGGCTAGTTTTAGCTTGAAA
TCATTTTTTTTAATATTTTATTGTTAGGCAATTATTCTTGTAAAAAGAAG
TAATTGTTTATGGATTAAAATAGATTTATAGGTTGTTTTTTTTTAAAAAA
AGATTTATAAGTTCAATTCTGAAAATAGTAGTTACGTTTTTTTGACTTAT
TATATGTACTAATATATAAAAAAACTAAAGTTGTCTTTTCATAAATGTAA
TATTTAGTTTTTTTTTCTTATTTTTGATATTTTCAAAGTTACATATATTT
TTGAAAACATATAATAATTTTCAATATAAAATTATTGTACTTACGAATAA
TAAAACTTGATTTTGTACCAAGTAGTCAAATTTTTGTAGGAGTTGATGAA
ACAGGTTAGATATCAGCTTTACCAGAAGGCAGAAGATGTAGATTAGAATA
TTTATGTATTAGTCGCTGACAAGCAAAAATGAAATGAGACCCAATATTAG
ATCTGGACACCTAGTGTCAAGTTGTCATTTGGGTTTTTTGCCAACTACAA
CCATTAGTCTTTATTAAATTCTGTGTCGTCCAGGTACATGGCACCACTAC
AAGGAGTTGTATCAGTTGAGGGGGGTAACATGCCTTCAGCAACAGTTCAG
GTAACCTGACTTTAACCTTCATCTTTTTTTACAAGTCCTCCAGATGGGTT
GCCCTTCCGTGATCAAATTTTCTAAATGTATCAAATTGAACATTTACAGC
CTCTTTTCTGTCAGCCACGGCCAAAGAGGTGTGCCACACATTGTCATATT
GCGAGAAATATTCACTATTATCAACAACTCATGAAGATGAATCCTTTCTG
GCCAGCACCTTCTGGCACTGCTTCTATGTTTGGAGGGAAACCCTCCAATG
TGAATGTTATGCCCCCTACAGAGCTACATGGTAACAGTTCCGGAAGGAAT
CTCAACTCCGTGCAAGACAAGGGGCATAGTCTTGCCATCTTCCCAGGCAA
TGCTGGAAAAGAAAATTTTGTCCAACCTTCTGGTGTTGCAGATGCTGGAC
ATGGAAAACAACAGATTTTACTTCACCAAGCTATGCCTCCACCTCCCAAT
AATATGATGGTATGTTACTGGTACTTTTCTTCCCTATTTTGCTATTGCTT
CTATTGAACTGTAGCTATTAAATTATTGTCGTATTGTACTGAAATGTTTC
CTGATTCTCAGCATGGACCTGCTTTCATATTCCCTTTCAACCAGCAACAG
GCGGCTGTGGTAGCTACTTCAGGCAGGCCTGCATCTGCAAAATCTCCAGC
TACCACAGGAAGCCTACCTTCTACCGGTGCACCAAATTCAGCTACCGTGA
CTGCCTCAGCACCAGCACCTGCAAGTGCACTGGGTTTCAACTACCCGAAT
ATGTCTGGAAATGAAACACAGTACTTGGTGTTACAAAACAGTCCATACCC
ATTCCCGATTCCAGCCGTAGGGGCACCACCAAATTTTAGAGGCCATACTC
AGGCAATGCCAATGTTCAATGGATCTTTTTATCCTTCTCAAATGATCCAT
CCGTTGCAACTCCAGCAACAGCAAGCACCAACTTCTCAGCAACAACAAAT
CCAACAAACTCATCAGAACACAAGTGGTGGCTCCACGTCATCACAGAAGC
ATTTGCAGTCCCAACAGCACCGTCCACAAGGCATTCCTATCAATGGTGGC
GGAACCGGAAATGGAGTCTTGCAGAACTTTGCTGCCCCCAAAAGTCGTTC
ATCTCAACATCCACAACAACATCATAATCAGCATATACCCCCGTCACAAG
CAAGGCAGCTTGAAAGTGAGGTGGCTGGTGAAGACAGCCCATCAACTGCT
GATAGTCGAGGATCTCGGGCTCCCGTGAATGTATACAATCAGAACTTTGC
CATGCCCATTCATCCTCATAATTTTGCTTTGATGAGCTCATCTGCTGCTT
CAGCTGGTAATCCCGGTGGCAGTGGTGGAAATCAGAATGATAAGAAGCAA
ACACACCAACAACATCCAGGGTTCAAATCAGGAGTTGAGTCCCTTCCATC
TCAAGCGTTTGCTATGTCATTTGGTCCCATGATTGGTTCCACTTCTGCTT
CTGGAATTGACCTGTCTTCCATGTCCCATAATCATGCCATCCTTCAAAGC
TTACCAGAGTCTACAAGGCAAAGCTATCATCAGATGATGCAGGCCGCAGC
AACTGCCCAATCTGTTCAGCAAAAGAAAAATTCTAGAATATCAGATGATG
GTAAAATTGGGGGTTCTGCTTCATCCAATGTAGATGAAGAGAGGAAGGTT
ATAACCAGGAAGGGTCCAGCTTCTAGTGGTGGACAGTCCATTAGTTTCTC
TAGATCAGACTTTAATGAGGCATCCGAGTCTGCAACTCCAAAAGATAGTG
CTTCTAACAGCATAGCTCGAATGCTGAACCTTGCACCTGGTGCTACTCGC
ATGCCTAATGTAATGAATAATTCTCAGTTACATGCTCAGTTGCAACATCA
GCAACAGTTGTTCCAGATGCACACTCAGCAGCAACAGCAACAACTAGCAG
CTAATGTGACAGCTCGTAGTAAGACACCAACAAGTAATGGGATTTCATCC
TCCGAGCACTTAACTTCATCATCAGCATCTGCGAAGTTTCCAAATTCAAT
ATCTGGCTTCCCACCAAATTTTGTTCAGAGCAGCAATAACAATTGCCCAA
CACAATCTTCACAATGGAAAAACTCTAACAGAACTCCCACCTCAGTTCAG
TCATCACTGGTCTCATCAACATCATCCCCCAAAAGTCAACAGCAGCAGTC
AAGAACTTTACAAAACCACACTCAGATATCCTTCGGGACAAATCAGAAAT
CATCAGCATCTCAGATGCAGCAGCATCCTAATTGCAGTCAGTCTCCATCC
CCTCCTGTTGCAGTAGGATCTCCTACTCATTCTTCCCTCTCTAAAGGTGC
TAGCTCTAGCCCCAGGACAAATACTACTTCCACAAACAAGACTGGCCAAG
CATCTACATTGTCATCGCAACAGGCCAAGAATTCACCATCTGCTCCGGGC
CAAAAGTCTTCTCCGGCAGGTGGAAGGAATGTTCCCTCAGTTCTTGGAAA
CCCTCACAGTGCACCTCTGAGTGGTACAACTAAAACCCAAATTCAGATGC
AGCAGCTGCAACAACAACAGCGACAACAGTTTCAACAGCAATTATCAAAG
CAAACACTGCAGCAGGCACTAGTTTTTTCGAATCCTTATTTTCAAGGGCA
ACCACCTAATTCTGCTAGTTCTAATACTTCAGCTGCTACTGGGTATAATC
TTCAAAGAAGGCACTCTGAGCAACCGTCGCAGCAACCTCAAGGGTCCTCT
CCAAGTTCTCCTGGAATGTTTATGTGTCCTCCAGCCACACAATCTAATAC
CAGCACAACTGATCCTGCAAAAGCGGCAGCTGCAGCTGCAGCTGTGGCAG
CAGCTGCTAGCAATATAAAAGGAGGTGGCTTCCCCTCGCAAGGAATTCTC
CATTCTGCCCAGTTTGGTGTACAGTCGTTGCCTGTTGGATTTTCCCATGG
TCACAGCGTGCCAGCTGCGGTCCAAGTAAAAGCGGAGCAGAAACAGCCAG
CTGAGCAAAAGCAACCAGCCGGTGAGTAATTTTCTCTATATGTAATAAAC
ACCCCCCCCCCCCCCNAAGATACTACAATTTCTTTACCAGGAATTGATAT
TCGTATACATGTTGGCAGCCTGACAAGAAATAATTGAAGATACACTGAAT
CCTTGAAGCTTAGACTGACCGTCCGTGAAGACGGGGTGCCCTTTTTGAAG
TAGCAACCCACAATTTTGGGGAAGTTGAGTGGGAGGAATGAACTGCATGT
GGATTTGGGCTAGACATGAATTATAGTTTGTTGAGTATGTGCCCTTTTGT
GCATAAGCTCTTCTTTAGTCTGACAATGTTGATCATGCATTAATGGTACT
AATTGATCGTGACTAAGTAAGTTAACTGGGTAGCGATTCACGATTAGAGA
GGAATGCTAGAGGCATGGCATTTTTTAAAGGAAGCTGCAGAGTTGATGAA
GAAGTCTTCTTCCTTCCATCTCGATTTTGTGCAATGTTCTGTTTATATAC
TTCTGGCGTAATGTTTATTACCATGAAAATAGAAAAAAAGTTTAGATTTG
GCATATATATATGTGTAATGGAGGGCAGTCCATGTATATATGTCTGGCAC
ATATGATAGTAAACCCCTCTATATTTTTTTAATTTAATGGTTCTCCTTGT
CTC