| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017381192.1, is a part of gene, LOC108209970. |
| The genetic_marker, MK016997 2_13004435, is located in gene, LOC108209970. |
| 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_017381192.1 | XM_017381192.1 | mRNA | DCARv2_Chr2:13004177..13011252 |
CCAGTAACTGGTTTGTCCGTAGTGATTCATGCACCTTTGCCTTTGTGGGC
AAGCGAAGCATTGTAACCTTGGCTTCCCAAGTGAGGGTCCCTCATCCTTG
ACGCATGACTTCAATACCCTTAAATATTTTGATTCTTAGTATTATGTTAT
CTATTATATATGGAATTTGAGAATGTTCTGTGTATGTTTTTGGCTCCTTG
GTGCTATGTATGCTTGGCTTCAGGTTCTAGTCCTTTTTACTTTGTTCCTT
TTCTGATCAAACATGTCATGTCAATTTATAATAGAGGTTCAAATTTAATT
TTGTAGATATTCTGTGAAGTGATTACACAAGTTATGTGAATTAATGAACT
GATATGGAAACCTAGATTTAGTGGGATTTGTTAAACTTTCTGAACGTTGA
ACTACAAGTCTAGTAGATTGTAGTTTTATTTTTATTATTAGATATTTTTA
TCTGCATTTCTGATGAATAGTTTATGTATGTAAATATTTTTGGATTTTAT
TATATATCTTATTTGTATGTTCAGTGATCTTTTCTTTATTAGAAATAGTC
AAGATGTGATCAAGTCAACTGATTTTGCTTCCTCCATGCTTCATGTGTAA
GGAACTTCATAGAATATAATGAAGTACTTTTTCCAAATGATTTGATCTTG
AAGATGCTGAACATGTTCTAACTATTTGCGTTTGACCTGAATATAATGAT
ATATTATATTGTATCCTTACCTTCATGTGTTTATATTATTAACATAAGGT
CAAATTCAAGTCATTATTCTTTCTAAAACCTCTAATTAAACATCCTCAAA
ATGGTTAGCTTGATCTACATATTGTAAATTAGTGACACACAAAATTGACC
GGAAACCATTTATATATAAGACCAACACAAATCACTGCCCAAGATGTAGA
TTTAGTTTTAGATCTGCTACTTGTAAGTAGTAATAAAGTATATCAGTTCG
CTAACAATTTAAATTTTTACTTCCCAAAAAGCATGTAGCCATATTGATGC
ATTTTGTACAAATATTTTTGCAAGACCCGAGTCCTGAGATGGCTTGTGCA
GCTACTTGTTCCGTGAAGAAATGTAGCACATTGACAGCTTAAAACTAATT
AAAATAATTTAGCTTAGAAATATTGTAAAAAGTGGAGAAGAGTAATACTT
CTGGATGTGAAAGTCAAAGTATTCAGCTGGTAGCCATACGTTAAAAGGAT
AACTGTGTCTACGTTATACCAATTAACATACTACCAGCCATTAGGCACCT
GTCAAGAAGGTACGAAGTTTCCTCTAGCATGCAATAAACATTAATTCCCA
TAACCAATATACATTTTCTCTATAGTATAACTAAGACCCCGTGTGTATAT
CCAAATAAACCATTATCTCTCAACTTTCATTTGGTAGCAAAACATTTTTT
CTCAAAATTCTAATAAAAAGTAATCTTGATTTCTAAGATGGGCTTGATGA
GTGAGGCATTAGCACAGGTTCTCATCCCTCTGGCAGCCTTTATTGGGATT
GCTTTTGCTATATTTCAATGGTTTCTGGTCTCAAAGGTGAGGGTTTCTCC
CGGAAATGATAACAGGATAGGAGACAGGTTGATTGAAGAAGACGATCAAG
AGTTAGGCATCAACGGTGAAGAAGCTGTTGCAAAGTGCGCTGAGATTCAG
AATGCCATCTCTATCGGTGAGCGTTCTCTCTAAAATTCACAGATTGAAAT
TCATTTGCTTTAGAGGGTCTAACATTTACTTATCTACTGTCTTGAACTTT
CCAGCTAATATAAATCTTCCAAAATGAAATAGAATGAACTGCACAAGTTG
TCAATTGCATCAATCCCTATATTTTTTTACCAATACAATTCAAAATATTT
GTGCTTGATCTCATATTATATCTTTGTTCAGTTGATGGATTGAAATTGTT
TGATTTCTCCGAGAACCGTATGCAGTCTGCTAATAGAACTTTCAAGTTTA
TCATCAATATCTGTTTCCTCTTTTTCTTCGTGACTGACGTATTTTTTGTA
GCTTTGCACTTTACTTAATTGTCTTTAACTTGAAGTTAGTTTCAGTTACG
AAATATATACTTTTTATAGAATTGAGCTTCCGTCAGCAGTAAATGCAAAT
TTAATATGAGTTTGTAAATCCCAGCATTTTCCTGCATATGGATTTAAGTA
TATAAACCATTTGCACGCAACACGTGTTGGCGATGGTTTTGTGACATTGA
TGGAGTTACAGTTTTTCATGGTAACATATTTTCTGACATTGTAAATAAGT
CAAACGTGATGCTGTTGATATTTACCTTCTTTTGTTTCCCTTTTATAAGT
TATTTTCTTTCCTGAATTTATTTATCTGCATCATAACTGTTATAACTGGG
ACTTCTACCTCTAAGACTTTCAAAGAGAACAACAAAAATTGTGCTTTTAT
GGGACAGAATAATTCGAACAAAGAATTTTGCTTGTGACAACTGATATGTG
CACAAATTTCAAACAAGGTCTCAGTATAAATGCAGTAGCCATTATACATT
TTCTATTTAAGTTTTAATCCATTTAATTCTGTTAAATCTGAATTCATTAA
TTTTCATGCAATTTTAAGCATTCACTAAGATTCTTAAAATTATTCTGCAA
ACACTGTTCCCCTTGAGTATGTTTTTCTGGTTACCAAATTATATTTGAAA
AAATAAGCAGACAATGACAAACCTGCAAGAGTGTGTTTCACCCTGCAAGA
ATATCCTTCGTAGGACATATATTAAAGGAGATGGACTAACGACTAATGTA
TTCTAAAAGAAGCACAGTACACACTATCAATCAAACTCCCGGATCTTAAT
ATTTGTATTCACCCACTAAACATTCAGATTTAAAAGTCTAGTCTCGACTT
TGCATTTTTTTTTTGTAGCATTAGTTTGATTTATCTTTCCACGGGCTGTA
CCATGTTACTCGTGACTTATGTATACTTGTTTATCTAAATTCCACTTTCG
CAGGGGCAACATCTTTTCTTTTGACACAGTATAAGTACCTTGGCGTTTTC
ACGGCTGTATTTGCTGGTGTCATCTTCCTCTTTCTTGGATCAGTTAAGAG
TTTCAGCACCAAAAGTCAAGCCTGCACTTATAATACGGGTGAACAATGCA
AACCAGCTTTGGCAAATGCCCTTTTTACTACAATAGCTTTTCTACTTGGA
GCTCTCACATCAGTCCTATCTGGTTTTCTTGGAATGAAGATTGCAACTTA
TGCCAATGCAAGAACTACTCTGGAAGCAAGGAAAGGTGTTGGCTATGCAT
TTGTAACAGCTTTCCGTTCTGGCGCAGTAATGGGATTCCTTCTTGCTGCC
AATGGCCTTCTGGTTCTCTATATTTCAATTAATGCATTCAGGCTATATTA
TGGAGATGATTGGGAGGGACTGTTTGAATCTATTACTGGCTATGGTCTCG
GAGGTTCTTCGATGGCACTCTTTGGCAGGGTTGGTGGAGGAATTTACACA
AAAGCAGCTGATGTTGGCGCTGATCTTGTTGGAAAGATTGAACAAAATAT
TCCAGAAGATGATCCTCGAAACCCAGCTGTAAGTCATTATACTACACATC
TAGGCATGATCTGTTTAAGAATTGAAGAGCATATCTCATGATATTTATGA
CGTTTTTAGACGATTTTTTACACATGGGGATAGTTATGGATGAGAAAAGG
AACATATTACAAGCAAAGACATAACATGATTTTCTGAAATAGAACTTGTA
GTCGGGCCTTATTCTTCAGAAAATGTAAACGATACCTTTTACAAGAACTC
GAAATACAACGTGGATGACATGCAACCACTTAACAAAAAATCATTCTATG
ATGAGACTTGAGCTCCATTTTTGTTTCCTCTTTTTGCATCTAAAGAGTAT
AAATATTTAGAACCTTTCATTTCAAATACAGGTGATTGCAGATAATGTGG
GTGACAATGTTGGAGACATTGCTGGGATGGGATCTGACTTGTTTGGCTCT
TACGCTGAGTCCTCTTGTGCAGCACTCTTTGTTGCATCAATATCATCCTT
TGGAATCAATCATGACTTCTCAGCCATGTCTTATCCATTAATTATTAGTG
CAATGGGAATTATAGTTTGCTTGATTACAACACTGTTTGCTACCGACTTC
TTTAAGATCAATAATGTGAGTGAGATTGAACCTTCCTTGAAGCGACAATT
ACTAATTTCAACTATCCTGATGACTGCTGGGATTGCGATAGTCACCTTTG
TTGCTCTACCATCAAAGTTTACTATCTTTGACTTTGGGGACCAGAAAGTT
GTCAAAAACTGGTATTTATATAATCTCCCACTACCTGTTGTTAAGGTTTA
AGTTGTTCATGTTGCATTACAAATAGATAACTTGGTGTGATGCTGCAGGC
ACATATTCTTCTGTGTTTCCATTGGCTTGTGGGCTGGTCTTGCTATCGGA
TACACTACTGAGTATTATACTAGTAATGCATACAGGTTTGTAGCTCCTTC
TCTATATCAATCCAGAAATTTGTTGTCTGGAGCTTCATGTGATCTCTTTT
TTTTTCTATATATATACATTTCCCGTATATTATAGTGATTCTGTTAATGT
TATATTTTTCAAACATGGCAGCCCAGTACAAGAGTTAGCGGATTCTTGCC
GGACTGGTGCTGCAACAAATGTAATCTTCGGCTTGGCCCTAGGATATAAC
TCTGTTATACTTCCCATATTTTCCATAGCCATTGCTATTTATGTGAGCTT
CAGCTTGGCAGCCATGTATGGAGTAGCAGTGGCTGCTTTGGGAATGCTTA
GCACCATTTCTACTGGTTTAGCCATTGATGCCTATGGCCCCATAAGTGAC
AATGCTGGTGGGATTGCAGAAATGTCTGGAATGACTCGCAGCATACGTGA
GAGAACAGATGCTCTGGATGCTGCTGGTAACACCACTGCTGCAATTGGAA
AGGTAATTTTATTAGGGAAATAAATATATGCTTCAGCAAAGCAGCAAACA
CGGTTATTATTACTATTGCATATTTATCGTCTGTCAGGGTATGATTCATG
TATTTAAGAGTACACAAGAATAGGCAAGGATAATTTCCTGGTGTTGATAT
GAATTACTCGAGGAAGTTATTGAAACTAATATAGTTTTTAAAACTTAATG
TAGACAATTGAGTAGATTTTATTATTTCTTACTGTTGCATACTAAGATTT
TATGCTAATTTTCGGTCATTAGACGATAATCTACCAAGCTCAGTACGTGC
CTTAAGTTACGTAGTTAAATAATTCTGTTTCTAAAACTTGGGACATCGAG
GCAGTTTTAGTTCTTGCTTGTCTCTCTTTTTTTTTCTTTTCTTCTTTTTT
GAATGACATTTTCAGTGTTTCTATCAATTCAGCTTGAAGAATAAGAATTA
AGAATTTGTCTCGAAAATTTGTATAGCCTTTTCCCCCTCTTTTTGCTTTT
GCATGTTTTGTTGTTGCATAGCTGTTATATTCAATTACACTAGAACAACA
TACCTCTCACTATCTCATATATATATATGGTGTCAGGGTTTTGCAATAGG
ATCTGCTGCTCTAGTATCCCTGGCTTTATTTGGTGCTTTTGCAAGCAGAG
CAGAGATCAAAACTGTCGATGTTTTGACTCCAAAAGTCTTCATCGGGCTT
ATTGTAGGGGCCATGCTGCCTTACTGGTTTTCAGCCATGACAATGAAGAG
TGTAGGCAGTGCAGCTCTTAAGATGGTAGAAGAGGTGCGTAGGCAGTTTA
GTAGTATACCAGGTCTTATGGAAGGAACAGTAAAACCAGACTATGCAACC
TGTGTCAAGATATCTACTGATGCTTCACTTCGAAAAATGATCCTACCTGG
TGCACTGGTTATACTCTCACCACTGATTGCTGGAACATTTTTCGGAGTGG
AAACTCTTGCCGGTTTACTTGCTGGTGCACTGGTTTCTGGTGTTCAGGTA
TGATGTTCTTACACTTTCGCAGTATTGTACACAGTTCGACTGAAAGATTG
AATACTTCTACTTTTAATTGCTCTATGATAGGTTAAACTTAAAACTGTAT
TTTTTAAAGAAACATATCCAAGATATGACATGCTTGAACTTGAAAGAGTC
ACTCGCCTAAACCTTAAGCATTATCCTCGTTTATTGTATATAATCTATGG
CCCTCCTGACTTTTATATTTGTGTCTGTCCATTTCTTTTCTATTTTTAGG
TTGCAATTTCAGCTTCAAACACAGGCGGGGCATGGGATAACGCAAAGAAG
TATATTGAGGTAAAAGTCTTTGCTTTAAATCGCATTTTAGAGCAAGTCCA
ATGGTAGATGCACAATAGCTATGGCTATCGCTAATATAGCACCACAAAAT
ATTTTTGTGCTAAAACAAAAGTTGTGCTTCAAAGGTAGTTGCATAACTAG
TTTCAAATTAGTAAATCTTTTGACTTTGAACTAAAACTCTATGTTTTTGG
TATTTGGTAATGTACAATGCAATAGTAATGGTTTGACTACTTCACCTTCA
GTTATAGTGAATGAGGACGTGGCAAGGGTACATAAATCCATCATTGATTT
AAAAATATAGAACCAAGGATGCACTTATGCATATTTGGGTCCAAATAAGA
AACCCCTTTGAAGTTGACTTTTTTGCATTCGGTGCCAAATTGTAGAAATA
GAACCAAGTCATTGCATTGGACTTGCTCTTAGTGATAGAAAGTTTAAGAA
ATTATGAAAGTATTTTAGTAGAGAACTTCGTTGTCTAGTTTTTAAAGCTA
ATCAATGGTTGTGTTTGTTATGTGATTTGTAAAGGCCGGTACTTCTGAAC
ATGCCAAGTCACTAGGGCCGAAAGGATCTGATGCTCATAAGGCTGCAGTT
ATAGGTGATACAGTTGGGGACCCACTCAAGGACACCTCGGGTCCATCGCT
TAATATCCTGATCAAGCTCATGGCTGTTGAGTCATTGGTGTTTGCCCCGT
TCTTTGCAGCTCATGGAGGATTGTTGTTTAAATGGTTCTAAAACCTAACT
TTAACCTTTTAAAAACCAAACTTTGTTCTGGTTGAAGTTCTGAAGTTTCA
ATGTTACCGTTGTACCTGTGTCGCATAGGATGATTTACATTTCTCGGAGT
TGAAAATTATCGACTTTCTCTGGTA