| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017362788.1, is a part of gene, LOC108195824. |
| The genetic_marker, MK008856 85036.37770, is located in gene, LOC108195824. |
| The genetic_marker, MK011324 7_527151, is located in gene, LOC108195824. |
| The genetic_marker, MK008857 85036.16321, is located in gene, LOC108195824. |
| 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_017362788.1 | XM_017362788.1 | mRNA | DCARv2_Chr7:526159..534131 |
AATTTAAAAGGACTTTCCCCAGCCTATAAAACCAACATAACGTGTAGAAC
AAAAACAATCTACCCACTCCGCCTCTTCATTCTCTCCAATTCCAGGTATG
CATATTCCAAACTACAATAATTATTTCATTTTTTTTATTTTTTCTTTCCT
TATATTTATTCTATTCGTTAGGGTTTTGAAACTGACTATTCACTACTCTA
CACTCTTGTAGCCGCTAGGGTTTTTGAGTGAAACGATGTCGTTGAGACCC
AACGCGAGGACCGAGGTTCGTCGGAACCGCTACAAAGTCGCCGTCGATGC
CGATGAAGGTCGGCGCCGGCGAGAGGACAATATGATCGAGATCCGGAAGA
ATAAGCGGGAAGAGAGCTTGCTTAAGAAGCGTCGAGAAGGCCTTCAGGCA
AATCAGTTCCCTCAAGCTCCTGTCGTTGAGAAGAAGGTACTTCTCAAGCT
TCGCTTCGATGTTTTTGTTGGATTATATTGATTTATTTGAATTTGTGGTT
GATTAAAAAACGTGATGATACTAGTTTTGGTGTAATTGTGTTGTCTAGTG
CTTTTGAGTTTAGTTTCGAAGATTTTTCTGGTTACATGTGGAATTTGTGG
TTGATTTTTAATATGAGATTAAGATTTAGGTTTTAATTGTGTGGATGTAT
GCATAGGAGTGTGTGAAATTTGTGTATGACTGGTTTGGAAGTTTGTATCA
ACATTTCTGGTTGATTTAGGATTGATATGTATCGATATTTCTGGTTGATA
TAGGATTGATAAGCTAAAGATTTTGGCAAAGATTGTTTGTATATGTAGGA
TTATGTGGAATTTATGTTTAATCGAGTTTCAAAGTTTATATTGATTATGT
GGTGTTTGTGGTTGATTTAGACTGACAAGTTTAAGACTTAGGTTAAAATC
AGGCTTACATAGTGCTTTGGGTTCAGTGTTGAAGTTTTTATTGGTTATAT
GCAGTTTGTGGATGATTTAACACTTAAGATGTAGGTTCAAATGTGTGTTG
CATATAGGATTTTGTTTTTATCTGGTTTATTTTAATGAACAGATTCGACC
AGCACTGAGTTTTCTATATGTTCGTAGTCAAAATACTGTTTTTAGTGTTA
GAGAATGTTATGTATGTGAACTACATACAAACTGTGTTTTTGTATTCAGA
TTATGTGGTGGTTTAATATCTATAAATAGTATTCAGTTTAGTGAAATTTG
GAGCCCTCTCTCTGTTCTCTTTTATATATTCATGTGTGTGTACACCTGGA
TGTAAGTATCTAATCTATTGCTAAGATGGTTTCTAGTCGAATATGACTGT
AAATGTATATTCAACGAATAAAGGAAAATTTTAATATACATCATTCTGAC
TGTGCTGATAAATTGATAATACTTGACAAATATATTAAATTTGTCTGATG
GTCAATTGTTTATGCAGTTGCAATTGGAGAGTATTCCTGGTATGGTTGCC
GGGGTGTGGTCCGATGATAGTAATATGCAGCTGGAGGCAACCACTCACTT
CCGAAAATTACTTTCAATAGGTATTAAAAGAAGCATGTAACTTTGTCGAT
TATTTCTGGAATTATGATCGATGCAATTATGTAAGACAACCTTGAGTATT
TAACAAGTATTAATTGACAGAGCGGAGCCCTCCAATCGAGGAAGTCATTC
AATCTGGAGTTGTTCCACGTTTTGTGGAGTTTCTCATGAGGGAAGACTAC
CCACAACTACAGGTTTGTGATATCTTGTTTTCGTGCTATATACTAGATGT
ATTTTAGTTCTTTCTACTTCATACCAATTTAAATGAGCTTTTTGCAAAAA
AATTTATATTCCAAATTAGCTGATCCTTTTCTTCTTTCAATGTATAATTA
CCAACAATCTTCCAAAGTTAGCCCTTGTTATATATCATTTCCATTGTAGC
CTCTTTGAAGTTAATATAATAAGTATGGGTAGATGTAGAAAAATTTACAA
GTATTTAAAAGTGGTGATTGACCACGGGTCATTCCTATCTTTCTTATAGT
TTGAGGCTGCATGGGCTCTCACAAATATTGCTTCTGGAACCTCTGAAAAT
ACCAAAGTGGTGATTGACCACGGTGCTATTCCTATCTTTGTGAAGCTTCT
TGGTTCTCCAAGTGATGATGTTCGGGAGCAGGTGCCATTTAAGAATTAGT
GATCCATATATGTATATATATTAATGAATATTATATCCTTGTGAATGTCT
TGGATAATCCTTTTTTAACTTGTAGGCTGTTTGGGCATTGGGAAATGTGG
CTGGTGACTCTCCTCGATGTCGTGATCTTGTCCTTGCTAGTGGTGCTTTG
CCGCCTTTGCTGGCTCAGTTGAATGAGCACGCAAAACTTTCTATGCTAAG
AAATGCTACCTGGACGTTATCGAATTTTTGCCGTGGCAAGCCACAACCTC
CTTTTGAGCAGGTTGTTTGTGGGTCTGTCTTATAGGTGTTTGATTACCTT
TTTTTTTCCCTTTCTGATTGTGGATTATTGAATAGTTTATCTGGGGTTAT
CTTGCAGACTAGGCCAGCACTTCCTGCTCTCCAGCGCCTTGTTCATTCTA
ATGACGAAGAGGTGCTGACAGATGCATGCTGGGCTCTATCATATCTCTCT
GATGGTACTAATGATAAAATTCAAGCTGTCATCGATGCAGGTGTCTGTCA
ACGTCTTGTTGAGCTTCTTCTGTAAGTGTTATATAATAAAAAATCCTGAT
TGAACACTTCTGTTTGTGTGCATGTTTGAGTTTGATACTTTGATCTCATT
GTGTTATATGGTGTTTCAGTCATCCTTCACCATCGGTTCTTATTCCTGCA
CTTCGAACTGTGGGGAACATTGTGACAGGGGATGATGTCCAGACTCAGGT
ATGGTCTGAACTAAGATACACCAGTTAGAACGAACATGAAAACACCAACT
AGCTTATAAAGTTGATATGAAACTGGCTCTTTAATGTGTTTTTCTGGAAT
TCAGATGCTTAAGTGATTTATGTGGTTTTGCTCAACATTTTGTCCGTCTT
ACTTTACAACAAGACTTTGATGCTTAATAATAGCCCCTTTTATAGGGGGT
AGTTGCATTAGTATAACCTAATATATACCGTAAGCTGTCATTTTATTAAA
TTCACAATTATGCTTGGTTTATATCTGGTTTGAACTATATAATTTGTGTG
AACTGTTTAAGTTCATTTTTTGTTACGTCTTTGTAATTGCAAAAATAATA
TCTACAACATGAACATATAATATTTCATTTTTGTACTTCATTTTCTTATC
TATTAACTGGTAATTAGTTAAGGTGTCTCCTGGCCAGACAAGGTTGTTGG
TGTGTTTCAGTTATTGTTTTGTGAATGTGGTTTTCAATTTGTTACCAGTA
CTAGTACTGCGAAGCACACACTAAGAACTATGAAAGGTATTAAAATATAA
GAATAAGTATGTAATGAATAACTATAGTAAGTTTTTCATTTGAAATGCCG
ACAACCATGCAGAAATATTCCATAAAAAATCGCTATAATGCTAAAATGTA
GATCGCAGAGGAAAACGATATCTAAAAGAATTGTGTGCAAGTTGTCCCAA
AGATTTGCACTTCTGTTAATTATTCGGTAATCAGTATTGGACTTTGTGCT
CGTGTACGAATAGGAATATTTGGGTGAAACCAAAGTTTTTTCACAGGCTC
TAATTCAAGAAATAGGCATGATTTCTGCATTAATTGATTTCCTTGTGGAA
GACGTTTGATCTGCAATTCTGCATGTCTGGTTATTAGCGACTAACTTGTG
TAGATCCAGCCAAGAGAATTTAGTCTTAATGGCAAATCGATTTAGTCTTG
ATGACAAATGTTAAGCCTTTGGAAGGCCACTTGTTAGAATATTGCTAATC
AGATAATAAAAATATTACAAGGGTCTTTATGGTGTGTGCCCAAAGGCACA
CACTAACAACTACTTTTTACTTGGGTGGCAGATCTTTGTTGGTGGAGATT
TTTGTGCATGCAGGGATTCATTATGGGATGAGAGTTAATAAAAATACTAC
ACCTAATCAAAAAGGCTTTGTTAGTTGTGTCTATGGGCACACAAAACATC
GATATTTATGTATGGATGTAATTTATGATGTAAAATATATAACTAATTTG
AATTATTTTCTGCTTCGCTTTACCTTTACTTTTAGTTGGTGGTTGCATGC
AAATAACATGGTTTAGCATATTTTTTTTGGTTGTTTTTTAAGAAGTGAAT
AATGCTGTGGTGTTTTCTTGTTCCAGTGCATTATTAACTTTGGTGCTCTG
CCTTGCCTGCTGAGCTTGTTGACCCATAATCATAAAAAAAGCATTAAGAA
GGAAGCTTGCTGGACGATTTCAAACATTACTGCTGGGAACAAAGAACAGA
TACAGGTTTGTGTCTATAGTGTTGCTGGTAAACAGGAGCAGAGGCTTTAC
TACATATTTTTTATTTATGCAAAATAGATTGCTTTGTTGCTTCCTCTTTT
TGTTGAATTATTGTTTTAGAGTTGTTTTTTTGTTATATGGCCGCCAAATA
TATGTTAGATGTCTAGGCATAAAAAGGGGAAGAGGGAAAGAAGAACCTGA
GGTTACAGTCCTTTAAAAATATTATATTTTGTATGTTGCGGAGAAGTTGT
ACTTTTTTGCATACTAGGCTAGGCACACACACCAGGTATCGGCTGGCCCC
AAACAGTTTTTCCCCGTAAAAGGACTAGTATGTAGGCGAAGGAGCAATGA
TCTATAAGGGCATCTCCAATAGGCTCCTAATTCATTCTTTTAAAATAAAT
ATAATATGCGACTCATAGCAAGTTAATATACTGAATAACGTGATAACTCC
GACACTACTCTTTATACCGGCTCTCCATTTATATTTTTATTATTATTTGA
GTGAAAAGTTGGAGATAGAATTGGAGAGAAATATATGCAATTGGAAGGAA
CTAAATATTATATTTGATGATAATAAAGTTAAGAGCGCCTAGTTGCTCTT
TAAGAGAGAGGAAATAAGTTAAGAGCACCTAGTTACACTTTAAAAGAGAG
GAGAGAGAGGAGGCTCTTAAATTTTTAAAGAGTCGCTAGGAGCCTATTGG
AGCATCAATTTTTCACATATTTGAATGTTAAGTTAAGAGTTTGTTTGAAA
AGCCTATTGGAGACTCTCTAGGGTAATTAGTCATTTAAATCCTAGTCAAT
GTGACATAGGCAGTATATAATAGTTGTGAAGTTCGATGCACGGATCTTAA
AGACCTTGGGCCTTGTAAAACTACCATGTGAGCACCTGATGTTTTGTTTT
TAATAAATGATTTATCTCGATGCGGTATATAAGCAGCTCTAGTTCTCCCC
GTTTCATTATAAGCAGAACCTGAAATATATATAATTGCCAAAAATATTTG
ATAACTAATGTGTGGGTCGAATAATATATGTTATCGGAAAATCTGATGTA
TACTTAATTTTGATAAGTGCATTCCACTTGCATAATGATTAGGTGCAAAT
TTGAGGGACACATTTATGCATGTATATTTAGAGGCAAATATGTTGAAATT
GTGTATATTCAGTACTTAAATTTGTTTTTGAAGCTTATAGCCATTTTGTG
GAATTTGTAGTTAATTTAACACTGATTAGGTGCAAATTTGTGGAACACAT
TTATACATGTATATTTAGAGGCAAATATGTTGAAATTGTGTATATTTAGT
ACTTGGAATTTTGTTTTTGAAGTCTATAATCATTTTGTGAAATTTTGTGG
TTAATTTAACACGGATAAGCTTAAGATTTAGGTTATAATTGTGTGTATCT
ATATACAGGAGTCTAATTTTATGAGAATCATTTTGGGGGACATATTCAAC
ACACATAAGATTTTGTATATTATGTACATTGGGAATACTGTTTTCTTGTT
TAGTGTATATTATATATGTGAACTACGTTTTTGTATATGAATTATGTAGT
AGTGTATTTATAATATATACAGTGAATTGTGTGAGTAGGGGAGGTTTGTA
GAATTGCCAACATCTTTCTAGCATGGTTATTACGGCCCCAAGTTGAGTCT
CGACGCCCGACCTTTAAAAAGACCAATAGACTAGGAGACATGTTGCCTGA
TTAGTCCTAAATAGTGGATAAGACTTTCATAATACATATAATTACTAGAT
TTCATATAAATATAAATTAACGCATCAATTTTTAAAGTTTAAGCAGAAGT
AATAGAATAATGAGTTCAAATTAAGCATACCTACTACACAATAACATCCA
AATACCAAATATCAACCATGTCCAACCTAATATAAATTATAAAACCATAT
GTGATGATGAAAAACAAGCAAATATCATATCATGTTCATTTTTATCTCCT
TGTGTATTGTCATTGATTGGACCGGGTGATGGTACGGTACACCATAATCA
TGGTTATCCTGGCGCAAAGTCAAACTTTGAGGAACTCAGAGCCGGGAGTG
CCTTTGGATCGACTAGTCGTCGACTAGTTGTTTTTGCGATAACCATGCTC
TCTAAACATATATCTTGGTAACTTATGTTTGGTCTGATAGATATATGTAA
AATCTGGGAAAAAACTGAGATGCTATCAATCATGGTATCAACCTTGATGG
CATTCCACTGGCACCATATTTAGATGCAAATATGTTTTCACACACATTCA
TATATGGAATACTGTGAACATATGCTTTTTACAGCGGTTGCTTTGTTAGC
ACTTTGAGATAATTTATGATGTTGCACATTACAAGAAGTCATCCCTTGCG
GAGCTAAAATGGACTTCTCTCTCTCTACACACAATTACATATTTTTATAT
GTATTTATGGTACTTGTGTGTTTGTTTTTTCTTGCTTTTGGACATTATTG
ATATAACTTGACTGTAATAACAGGCTGTAATTCTGGCGGGGTTATTTGGG
CCTCTGGTTAACCTTCTTCAAAATGCTGAATTTGACATTAAGAAAGAGGC
AGCATGGGCAATTTCAAATGCCACTTCCGGTGGTAGCCATGATCAAATCA
AGTATGCTTGCCTAAGCCTATGTATTTTACATTCTGCATTCCTCTTAGAT
TCAGCTGCAACTTAATTGCTGTTTCTATTTGTTAGGTTTCTGGTGAACCA
GAGCTGTATCAAGCCTTTGTGTGATCTACTAGTCTGCCCTGATCCTAGGA
TTGTTACTGTCTGTTTGGAAGGACTGGAAAACATCTTAAAGGTAGGAGAA
GCTGAGAAGAATTTGGGAAATAGTGGAGAAGTCAACTATTATGCTCAACT
AATTGATGAAGCTGAGGGGCTTGAAAAAATAGAGAACCTGCAGAGTCATG
ACAATAACGAAATATATGAGAAGGCTGTTAAGATTCTGGAGACATACTGG
CTGGAAGAGGAAGATGAGACTCTTCCAACTGGTGATGGCAATCAAGCTGG
ATTCAACTTAGGAGGGGCTGATGGAAACCTTCCATCGGGAGGTTTTAATT
TTGGTTAAGGTGAGCACACCTGAATTTTTTATCCTGTATCGATCTGTTAA
AAACTTCCGCAACCCCTGTTTATTAACTGATTGTTTGCGGACTTCTGCAG
GGGCTTACTTTCTGTGTGGGGAAGGTTGTCGAAGTAAGCAAGGTCTAGTA
TGGCGTCGCGTCAGGTCAGGACCAGTCCGGTTGGGTCAGGTCGGGTCAAA
GCACCACATTGTGTCTTGTTGTCATCTAACACAGCTGTTGTTGTGGCTAA
AGATGAGCCGAGGTCGGTCAAGGTTTAATAGAACGTGGTGAAATAAATTT
GGGGGGAGGGGGGTTGGGGTAATTGTGTCAAGAGGCATATATGTCTTGAG
TTGAATGTTTTACAACCAAGTTTCAAGTTGGTTATTGTAACTTGAGTAAA
GGTTGGGTCAAACCGGAGTTTTGTTCTTAGTTCTTGGTCTGTTACATAGT
CCGGCATTGGCCGGGGGTGGATGGTGTATACTCTTGTCTTACGTATTGTG
GGATGATGAAAGATTAATTGTGTGATGTGTTACCCTTTATATATATATAT
GATTTGAAACTGCTTTCTTTTA