| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017374216.1, is a part of gene, LOC108204667. |
| The genetic_marker, MK003353 K0797, is located in gene, LOC108204667. |
| 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_017374216.1 | XM_017374216.1 | mRNA | DCARv2_Chr1:33706353..33714154 |
ATATCATATTTCACTCCAAATATGGAATGCTTTCACTTGCTTTCTCTCCA
AAAAAAACTTGCTTTCACTTGCCATCATCTTCCCCAAATAAAATCAAACA
CTAAAAATTAGGGTTTCAAAACTTCTTTAATTTCAATGGACGATTACAAC
TTCGACGAGTTCTACGACTACAATCGCCACCCTAACTCCACGACGTTGTC
TTGGTCCTCCGACAATCCCCGTGCTCACCACTATCATCACAACCAGAACA
TGAATTATTACCCGGAACACGACCCCTTTGGCGGCCCCGGTGGCTTCAAT
TTCCCTCCCCATCCCCGTAAAAGACCACATTTCAGTTCCGGTCCGTATCC
TCTTTTTTCGATAATAGTTTTAGCACGAGAATCCGCGAGAACAATTGTTC
TGCACTTTTCGTATTAGTTGTTTTGATAATTTGGAAAAATTGATACTATG
TGAGAATTGGTGATTATTATATTTGTGCATATATGTGTTGTTTATAGTGT
TGCTGAATATAGTGTTTGTTTTAAAGGTTGTGGTGAAGGCGGTTCTGTTG
CCAAGCTTTACGTAGGAGGGACACCGAGAAATGCTACTGAACACGATGTA
AATTAACTCACTGCCTTCCAGATTTCAAGTACTTTGTAGTCTTTGTTACT
ACTATTTTGTCTGTAACATTTCTTTAAACATTCGTTCGTGTTTGAAAACA
TGAGCAGTTGTGGTTAAATGATAAGTAAAAAAGTGGAAGTAGTTAGTAAT
AACGCAATGCCAAAAGAGTTAATAAGGAAGTCTTGCAGGCGTGATTTGGT
CATTACTAATAGTCACTTAATTGACTAATTGTGGACTCTTCTGTATGCTT
TTTAATTTTAATAATGTACTGCTAATACCCCTGTTTTTCATTTTAACATC
AGATACGCGCCGTGTTTGGAGAACATGGAAATATCATTGAGGTTGTTTTT
CTCAGGGACAAAAGAACTGGCATGCAACAAGGTTAGTAGATGTCGTATGT
ACATTATTATTCTACTCTAGCAGCATCATGTTGCATACCATGTCAAGGTA
TAGCAGCATGGAGATATGATCGTTGATCACCTGGTCTTACTTAAAGGAGT
TTTATAATGCAGGGAAACTTGTTTAACCTGTAAAATAGTTTGTCCTGATT
CAGGACACAATTCCCACACACCAGGAGTAGGCTCAATAAGTTCTTAAATC
AGACCTATCAAATATCATGTATATTAGAAATATATATATATGTTTCCAAG
GGTCACGCTCAAGAGAGAACCAGTCCTTAAAATAGAACCATAGAACCACT
CCCTAAATTTTTAATAGGTTTTTAGGATCTAAATCTAAATACATGTTTTT
TTCATCGTTGTGTGTGTTCAAAAATAATTTTAAAATGTAATACATAGATA
TTGACATTTTTTGCATGTGAAGTTCTACTGCAAAACCCTAACTAATACTT
AAGTTCTGCTGCAGAACCCTAACTAATACTAGAAATACGGTAAAGGTTCT
ATGGGTTCTCTCTCTAATGGTTCTCTCTTGAACATGACCCTATCTATGTT
TCTAAGTGATTGTGAAACTATTTTTATTTCTTTTTTATACTATTATATAT
GTGCACTTGTACTCTTTACGTTAAATCTTGTCATGCTAGAAAGAGTNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAAAGAGTGTTTTTTT
TTTCTACGTGAAATACTGCTGCTCTGATTGTCCATATCTGACTGGAAGTC
ATGATTCAAGCCTCCGAGATGTCATAGCTGATAATTTTTTTGTTGATCCC
AATTGATGCATTACTAGAGGGATTATTTCAAACCTGATTTCGAACGTATT
TCACATGGATTATGTTTCCATGATTTCTGGAAGTCACACATGTAGGCACG
TATAGTATAGAACTAGAGTACTGTAGTACTAGTGTACCAACTAAAATTCT
GTTTATACTGTGGACCAGGGGTGCCGTATACATAATGATACCATATACAT
AGTAATAAAGCCAAAAATATGTATCCTAATTTTTCAAACTAAAATTGTAT
TGCATGACATTTTAACCTTATAAGTAATTGGCAGGTTTTAGCACGAAAAG
GGTTCAAATTTTAGATTTAGCACAATGTCTTCGAAATAGCTGGGACAACT
TGTAATATAGAGGAGTTAAAAAGAATTCGTTTTATGTGTTATTTGAACAG
CTTATTGCGAAATTAACTGTTTAGAACTTCCTTTTATTTTATTTTTAGTG
AGATATTTTCTGACTTACATATTACTTATTAGATGCTTAACAATCCTTAA
CTTCTGTATAAATTTGTGGGTGAACTCAATAATTTATGGGGGCATGTAGT
ATAATATACACCTAGTTCAAATTAAAAAAATGCCAGTAAATTGTTTTATT
ATGGGGGCACGTGACCGTCCCCATGGGCCTCAATATACTCGGCCTCTGGT
TATAGATGGTCTACTTGTTACTTGATCTTAAATTACAGAGTGAGGATATA
TGATCTGATTTTCAAGTACAAAATAAATTTACAATAATATCAATAATCTC
CAGATGATGCACATGCCAAAACATTTTTGGAGCATGTCTTACTCCAGTGC
TAAATATTTATTAGTGCTTGATCTGCACGTTTGAAACCTGCTAAGTCGAT
GCAAAGATGTCTACTGGCTGTTTAAAATCTGCAGTTCTGCACGTGTAAGC
TATTAAGGCCTATTCTAATATATATATTTGGCTCCAAAAATTTTTGTTTC
TTAATATTTAATTAATAATTATTTGCCACTTTTATGTGCTGCTGAACGAT
GTATATTCAAATGAAGGTTAGGAGCACATACTTTCTGTCCTTTTATGGTA
AAATCAGGCCTTATATTTTTGATGGAATCCACGCCTGATTCTAAAGTTAT
GTTTGAAGTGATAAACTACATGTCTAATGATTAATTTTCTTCTTTACTAT
ATATCTGGTCAGCCTATCATATCTATAAACCGGTCCTCGATAGTAAGTGA
CGTGTGTTATCTTGCAGGATCTTGTTTTGTAAAATTTTCAAGGTTTGAGG
ATGCTGATCGGGCGATAGAAGTTTTAGACAACCAATACACGTTTTCAGGG
GTAATTTATCTGGACGTTAACAAAGTGTGTTGCCTCTAATTATGTTGCAT
TGTGCTCAGTGTCTATATTTGTCTTGTCCAGGAAATGGCCCCTATCAAAG
TTAGATATGCGGATGATAAAGAACGGAGACGCCCGGGTAATTGAACTTTT
AGGTTAATTGAAAGCCAAAACAATATGTGACTTGTAATTCTGTAATTGAT
TGTATAGATTGTACGATATCTCTATTTCATCTGGGTGTCATGGTTCCTCT
GCATGGATTAGTACAATTGCAGTAAATATTGAACACTGTGCCCTGCCTCC
ATGCCTATAGAGTATAGACCAATAATTGGACTGTACTTCAAATCAATCTA
CTTGAGAGCCTTTCGATCTCAAATTCATTTATCTGGGCTTAACCCGCTCA
AACTATCTAATCAACTAAATTTGAATAAAGTTGTTTGTTTTATGAATTTT
GGCCGATCTACGCAACCCTTGCTCCCTCGATAAAAATACTTGTAAAAAAC
TTGAATTTGACTAGAGTTAAATTTGTTCTTGCTTTGTTAAGTAGAAATTG
AGCTCAATTATGGGATAGTGAAAGATTTTGTATTCAGTAAGGCAGCTCGG
CTCATTTAAGAAACTTGAACTCGATCTCATTAATTATGTGCTTAACGTGA
CCTTAAGTACAGATTTGTGTCTACAGTACTGCATCTTTTGGAACACTGTT
GATATCTATATCAAGTGCTTAAAACTAACAAATGTATTAAATTTCTTTTA
TGCACTATGGGTTCTATCAAAAGCAAAGTTTATGCACTTGGTTTAGAACT
ATGTTTAGTAGTTTTGGCTTGAATTTATTTGGCAAATCTTATTCAAAACT
GGAATTTGTGATTTTTTGTCTTTGATCATAAAAAGTACTTGTTTAGTTCC
CATTGTGAAACGAGTGGATGGAATTGTTATCTCCTGGTACAAGTTTAATG
GCATGCCTATGAGTATAGAAGTCAATTAAAGAAGCACTTGTATGTGAGAA
TGTGGTATAGATTTAATGAATTTACAAACTCAAAATACAGGAAGTGAATA
TGAAGAAAAAGAGTAGTAACTAGTAAGATTATATTAATTAATTATTATGT
AGGATATAAGAAGTCTAGCTTCCTTGATACAAGACCACTAGGCCAGTAGG
CCTTTGAGTCACCCAGAAAAGTCCCAGACCCAAAATGGGTTTACAAAACA
CAATACTGATATCCTTTTCTCCTCCCTGCCAAGTGCCATCTATCTGTATT
TATACCTATTTTTCTTACCCCGTCCTTTACTACCACTTATTTTTACATTT
TATTGTTCTAACAATAGTGCATTCGGCATTCCCCGTTTTGCCCTTGGGGT
GACGCCTAGCATAAGTTAAAAGTGACTGGGGACCTTGTCCCTGTAGTCTT
TGCAGAAAGTGTCACCTAGAAGTTTTGTCTGAAGATGTAATATTGATTAA
CTAGAACTCGATCGATATGAAAATAAATCATTTATGCTGCTTCTTTTTGC
ATGCATATATGATAATGGGGTCATGGCGTCATGCTTTGGCAAGGGTCAAA
CACTCTCGTCTAACATGCCTATTTTGTAGCTTGCAATGTTGGGAGTAACA
TAATTTTCTGCATGGATATTAATAATATTACATGTTACTGGAATTAAATG
CTTTATATATGACTAAGCTTTAATTTTTCTTTTTCTTATATGTTTCTGAC
AAGTCTCTCTTTCGCAGCCTCTAACTTTGGGACATATACATTCAAACTGT
ATGTTGGTGGTTTGAACAAGCAAGCATGCAAAAGGGAAATTGGAGAAGTA
TGCTTTCCACTGTGTTCACACTTAGTCATACAGAAACTGAATATAGTACT
AGTTTTTTCTTGTCATATCATGTTTTAGATGTGTGTACAGGTGTACTTGC
TTTATGCTTACCACTTCTTTGCTGCTTTCCTGCACAACCTGCTGGTCTAA
GTGCACTTGTCTGTAGGTCCTTGCTGGAACAGTTTGAACCTAAATTTTTT
GTGTTTTGTTAAATAACTAGCATTGCAACTAGCATTGCAACTGGTTTGTC
ACAATTTGTCATATCCATCAAGAACGGGAAATTGATATGTGTGATCAAAG
CACTTATTCATCTGTCCAGATAACTATATATTTTGCATTAAAAAATATGG
CGTATATATTAGTGTGTTTGGACATACAAAATCCAAGCATGAGACGGTTG
AGTGAACAATAAAAATGGAGTAGGAATAGGTAATCTGCAAATCAACTAAA
TGGCACCACATCCTTTCACTAATACCCTATGTTTAGCAACAAAAAAAGGG
TTCATATTCAACAAATAACATAAATTCGCAAAAATACGACAACCTTTCTC
ATAATAACTATGATGAGGTGTGTGTGTGTGTGTGTATTAGCATCCCAGCT
GAGGCCCAACAAATCGTTGGAGCTGAATTATTCTTTATTAGCAATAGATT
CAGTTTAATATATTTTGATCGCCATCTTTCACAATCTGCTTATTGTTATT
GTCACTAGTGTATATATATGTGTTATTCCAAGCCTTTGACTCTAACAAGA
TGTTATATATTTCTTGTATAATACAATCAGATATTCTCCCCATTTGGTCT
TATTGAAGATGTCTTCATAGCGCTCGATGAATTCAAGCAAAGCCGTGGTT
AGTTATTCTCTGAGTTAATCAGTGTCTATTTGTGATTAATAGAGTCATAT
TAGCGAAGCGAAATTGTTTGAGTCAACTCCAATAGCCTATTTATTCAGCT
TTTGCCTGAACCACTTAGCAGCATTTCACAATTGGCTCCATATGTGTATC
TTTTTTTATAGTTAGACTTCCGTTTTCGATATTTTAACTACTTTGCTTTG
GGTCTGCTTTATAGGATATGCATTTGTTCAGTTTTCACACAGGGATATGG
CCGTTGCTGCAATTAATGCATTACATGGAACATATATAATGAGAGTAAGA
CACTCTGAGTGTTATCGCTCTCATCAATATTCTTCAAAAATTCATGTTTG
CTGATACTATAATATCAAAGCAACAAAACCCTGGGGAGTACTGTTTTCAT
GAGATCTGTTTATCTGTTATGCAGGGTTGTGACCAGCCACTAATTGTTCG
ATTTGCAGATCCTAAAAGGCCAAAAACTGAAGACTCAAGGTTAAGCCAGC
ACCACTTAACTTTAAGAAATTTATTGTGCTGCTTAATTTCATTGCAATAA
GATCTATGATAAATAAATGATACAGGGGATATTGATTTGAAATCTGATAA
CCATGCTTGCTGATTTTCCAAATCCCCTTAACCTACCTGCATGGAAGCGT
GACTCATGAAAAGAAACAGCAGAATCTTTTATTTTGTGCTTCATAATATA
ATTTGCAAGTGTGTTTAATGCTCACGTAATATTTGTTCTAGATAATGACC
TTCCAATGTCCAATGTTGAAATTTGAATAGATTTTTGTTCTTTTACTTTT
TCTATATTGCTCTAAATATTGATATAAATAGTAGTTTCGAGCAGGACTTT
GTAGTTTCATGAAACAATTCCTTTCACTCTTTTTGATAGTGGATATTTTA
TTGTTTTTTGCTTGTTGCAGGCCGGTACAATCTTTTAAAGATATTCCAAA
TCGGTGCAGACAGCCCACTTCATCACCTCAGGTTAGTCTATATTGGTGTT
ATCTGTCAAGATAGTTAAGTGCACAGGCAAAAGGGCTGTTCTTTTAGTTT
ATTTATAATCTTGCATCACTCTCTTAACTTCTGTGGGAGTTTAAAGAGGC
AATAGTATGAACGTTATATTTAGTACTTGTAGTCTTCTTGAACCAGAAGG
TTGCATGTGATAGGTTTTAGCATCGTACAGGTCTCAACTTCAATGGGGTA
TCATGCTTCTCCTGAGCCCTTCAGCAACGACCCAGAAGATTCTATAGATT
GTGATTGGAGTGAGCATGTTTGTCCAGATGGATACTTGTACTACTACAAT
TGTGCAACTTGTGAGAGCCGGGTCAGTTCCTGACAAAATTATGTATGAAC
TCTTTCTTATCCTGATTTAGACTGTTTGAATTGCTAATTATCTATTGGTT
TGGTAAATAGTGGGAGAAACCTGAGGAATATTTGTTTTATGAACAACAAT
TGCAAAAGGGCCTGGAGCAAGGAAATTCACAGCGTAAACAACCGTACATG
CCATGTTCTCAGATTCATCCAACTGATCAAGGTTTTCAAATGCAACAGGT
TTAGCTTCAAATGTAGCTTACATATTGAAAAATTATATCAAATCACGTAG
CGTTACTGGTCAGTCTACTTTCCTTTTCTGTACTGTGTAGCATATTATAT
ATAGTCGTGGAATTAATTTGTGCATCACTTAAAGTTGCCATTTTATATTC
TACTTTTTCGCTGAACCGGCTCAGAGATGTTCAGATACACTGTTATCTTA
TTAGTATCAAGTGTTTCTGTTTTTGTCGGAAAGAATGCTTCTGAAATACA
AATTTATAGTGCCGGGTATATTAAAGTAAGCAGGAGGAAATAGTTTTTTC
C