| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017363032.1, is a part of gene, LOC108195990. |
| The genetic_marker, MK002939 K0383, is located in gene, LOC108195990. |
| 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_017363032.1 | XM_017363032.1 | mRNA | DCARv2_Chr7:3146641..3155043 |
TATATATAGTCGTTGTTGTATGTATATGTTAGTTTGAGTTTGACATCAGA
ATTGTTGAAGTTAATAGTTTAAGGGGACATGTTGAGTTGTGAAAATGATA
GCTTCACCGAGAATGATGGGAATAGACGAGAAAATACATGTAACGTTGTT
GAAGAAGGAGCAGCAGCAGCAGTACAATCAGCACTTTTTTGTGGAGATTT
GAGCCTCCGTCTTTAAAGGGAAACTTCTCCGTACTCTTCCCTTTTTCTTC
TTCAAGTCTTTTACATTTTACCATTTTTGACTTCTTTCTCAAGCTTTAAA
CATAACCCCATCTCTTAATTTTGTTCAAGATTGAAAATTTATCTTCTGGG
CTGTTGGTGTTTTTACTGTTTGATTTCAAGAACCATCTCTCTCTCTCTCT
CTCTCTCTCTCTCTCTCTCTCCCTCCCTCCCTCTCTCTCCCCCCTCTGTG
TATGGATGCATTGGATCGTGTGTTTGTTTGTTGTGATGAAGATTATTGGG
TTGACTAGCTAATTGGGGTTTTTAAGTTTGAGAGTCTTGTTTAGTGCTAG
ATTGATATAAACCAAAACAAAGAAAAAGAAAAGCTATACATGTTTTTGCC
ATAATACATAATCATACTATTACAAAGTTTGTATATATAGTAGTAGAAGG
GTATTCATCAAATTCCTTTAGAAATAATTTCAAGTTCCAGGGAAAATTTT
ATTCCTTTCTTGTTTCTTTTATTCTGACAATAGAAAAAGATTTTAACTTT
AAACAGCCCACCATTTTATTTTGGGATTTGGTAAATTTCACCTCTATTAG
TTGGGTAAAGTTTACATTTTCGATCTTTTAGAATTAATCAGGTACATTTA
CAGAAGAGAAGAAGAGTGATACACATTTTTTTGGGGGTTGGTATATGGTG
GATTGCAGTATTCTATGGGATTAGCTGATAGGGGTATACTGGATTTGATA
CAGAAAGTAGGATCTTGGATTAATTGGGGCAACGGTGATCAATATTTTTG
TTCGGGCGAATACAAAATGGATAAAATTTGCTGTGATTGCATGATGACTA
TTGCAGACTCTTGCATTAGTTATCATTGTCAAAGATGTGGTAGGATGTTG
TGTGACAATTGTGTGCAGTCAAATGGTTGTTTTGGAGGTGTTGCATTGGA
AGATTCTGATAACACATATGATGCTGGCGTAATTGGTTATTGCAAATTCT
GCTCTCATATGAGTAATAGGAAAAAAGTTGGAAAAAGGCTCATTGAAAAA
GTTCATCCTGCAGAGTCTCCACGACAAAGTTTTGAACCACCATCTCCTTG
TTTCAATGAGAGATGCGATGACTGTGCTAATCAGGATTTTGCTAGATGCA
GAACTCATTACTCTCCAAGCAGGTACGAAAAACAACCTGTTCTCAAGACT
AGATCTCAGAATTAATTTGATTAATAAAATAGTTTATTTTAACTAAGCAC
AGTTGATCTGTTATTGCTAAATAATGGTTCAGGTTCAGTTTATTTACCAC
AATTAGCTTCTGTTTGTTTGCTTCTCTTTTCATTTATTATTATATTTCTG
CCTTCCATCATATTTCTGTCTATCACTTTTGGTAGCATTCTCAATGATGA
TTGCCTATGAGAATCATGATCTAGGGATCACAGAAACGTTTGATATTAAG
TTTTATTCTAAACATGATCTTAAGTTATCCCATGAATCAAATTTATCATT
TCTGAGATCATCCCATAAAGATAAATTAAGAGATGGAGTAGATGATATTA
TATGAACCCTTTCAAATGTGCTAAAAAGTGATGAAATCTTTCGTTACGAA
TAAGGCGATGATATATACTCCATCCGTCTCAAATTAACTGTATTGTTTGA
CTTTTTGTGGTTAAATTGATCAAACTTTGACTGATATATTGGGACGGAGG
GAATATAAACTCGTTAAGTTGTATATTTCTTTCTTCCCTCAGATTACATT
TGGTTACTCTAGACATCAAGATCTCAATTACCCTTGTTCATCTTACGAGA
ACTTGCTTCTGCTTTCGTCAATAATCACACCGTGCTTATTATTGTAGGAG
TGATGGATATGATAGAGAGGATTCCACCAAAACCTTCTTCAGTTCATTTT
TTGATGATACATCAGATATAGATTCAAGTAGTATGAGCGCTAGACATGAG
TTTTACAATAATAAGTCAGTTGGATCAAGTCCAATGGACAGTCCCTGTAG
AATCCATAATTTTGATAAGACAGGGCAATCTGCAGAGCAGGAGCAAGTTA
GGACCGGAATGTCTCAGAATGATGGCCCCTTCGATCAAGATACTTCAGCT
GTACCAGAAAGGCCTGACACAGGTACCGAGGATATTGACCATACTTGTGA
AAACGAGGATCTTTTATTGGCATTTCAGGATCAACAGCACTTAAATTTGG
AGAACAATGGTCTCATCTGGTTTCCTCCTCCTGCTGTTGATGAAAATGAT
GAGAGAGAAGATAACTTTTTTGCTTATGAGGAAGATGAGGATGACATTGG
GGAGGTAACTCCGATGTTGTCATCTGGTGAATTGAATAGCATGCTACCTG
AGAAGGAGAGAGATTGTGGCCAAAAGGAATCTTTAAAAGCTCTCGTGCAG
GGGCATTTTAGGGCGCTCGTGTTACAGCTCTTGCTTGGGGAGGGTATAAA
GGTGGATAAAGAAAATAGTGAAGACAACTGGCTTGATGTAGTTACAGCAA
TATCCTGGCAAGCTGCAAACTTTGTGAAACCAGACACTAGCAGTGGAGGC
AGTATGGATCCTGTTGATTACATAAAAGTTAAATGTATATCATCTGGAGT
TCCTAGTGAAAGGTATGTACTCACCTTTTCCTTCTTATTTCATTTATATC
TGTTAGTGCTCCAAACCCATCTTCATTTTTATTTTGTGGTCGATGCAGTA
AATAATGTAGAGTTTTATTCTTAATCTGCTATCTGTTTCAATATATGCAG
TAAATTCATTAAAGGAGTAGTGTGTACCAAAAATATAAAACACAAGCGCA
TGATTTCGCAATTTAGAAATGCCAGACTACTTATTTTGGAAGGAGCACTT
GAGTACCAAAGAGTTCCAAATGAGCTGGCATCTTTCGATATGCTCCTACA
ACAGGTTTTTAATTGGAAATTTGGTCTATGGTATGAGATATTCTGAAAGC
ATGATCTTATGAACTTTACTTTTCTTGACAGGAAATTGATCATCTGAAGA
TGATTGTTTCAAGGATAGAGGCTCACCGCCCAAACGTGTTACTGGTTGAA
AAAAGTGTATCTTCATATGCCCAAGAGTATCTGTTGGCAAAGGAGATCTC
CTTAGTGCTGAATGTTAAGAAGCCTCTGCTACAGAGAATAGCTAGGTGTA
CTGGTGCTTCTGTAACTCCATCAATTGATAAATTGTCTACTGCACGTTTG
GGACAGTGTGAACTCTTCCGCATAGAAAAAGTATCTGAAGACCTCGAACA
AGCTAAACATCCCCAAAAGAAGCCATCTAAAACCTTAATGTTCTTCGAAG
GTTGTCCAAGGCGTTTAGGTTGCACGGTAACATTCTCCTTCTCTCTGCCA
GAAACTAATCTGCCCTACTGTTTAACACCTTCCAGTGTGCCTGTGATGTA
TGCAGTGATAAGCATATTTTATCTTTTACTGTGTAGTTAATTTAAAGTTT
TGAGAAATAGCGGGAACGTTAATTTCTTTTTAATTCTAATAGAAACATGT
TACTTTTGCCAGTGTTATCTCTTCAGTAATATTTGAACATGTGTTAAATT
TTATCTAAGGGATCAAGTTGTGCATCAGATCATCTTGCTTTTTAGTCTCA
AAAAGTACAGGTCACATCCTAAGATGGTTCCATCACAGTTTAACATCAAC
CATTAAAATATTTCTACATATAAACAGTGCTCATGGCCGTAGTTTACGTA
ATCTCTATGTATACGTTTTCTAAATGCAAAAACATTTTTACCATCCATCT
TAAAGGTTCATCTTACAAATTGAAGGCCTTCTGATTGTTCTTTATTATTT
GATTTCCTTAGGTACTGCTAAAGGGTTCCTCTCGTGAAGAACTAAAGAAA
GTTAAGCATGTTGTTCAGTATGCAGTTTTCGCAGCATATCATTTGTCCTT
GGAAACTTCTTTCCTCGCAGATGAGGGTGCTAGCTTACCTAAACCAACTT
CAAGATCTTCATTTTCAATACTTGAAAGGACAAGTATCGACAGTGCCATT
TCTGTTGTCCCTACTCCAACCTCCTACTCGGAAATTGCTGATCTCCCAAG
TTTTCATGAGGAGTCTGCAGGCCTCAAGTTAGAACTTGAGGCAAGGGAGT
CAGTAATTGAGCCTTTTAATTCTCAATTTATCTCTTCTCCTGCCTCTGTG
AAGTATGGTGTAGAAACCTCTGATGTACTTAATAATGGTTTACCAGCTAC
ATTTATTTCGGAGGAATATAGGCCAGGTGTAGTTTCTACCGGAAGTAGAA
ATTTTGATCGGGAGGATTCCCAGCTGACCATAAACTATATGCAACCATCT
GAACCCTTTAATCAGAAAAAACATGAACAATTAAAAGATATTGATGGCTC
TAGTGAATACAATTCAGCAGGTGATAGTCACCAGAGCATACTGGTATCTT
TTTCAAGTCGCCGTGTCCTTGATGGAACTGTCTGTGAACGTTCTCGACTC
TTGCGCATTAAGTTCTATGGTTGTTTTGATAAGCCACTTGGAAGGTATCT
TCAAGAAGATCTGTTTGATCAGGTACACATTTCTTTTTTCTTCTCTTCGA
TTTCTATTCCTACACTTACAGAGATGGGATTATTGAATGGGTGCACTTCT
AATGCTAGACTTCCTGCTGTGAATCATGCAAAGAGCCGGCTGATGGCCAC
ATAGTTTGCTATACTCACCAGCAGGGTAATCTAACAATAAGTGTTAGGAG
ACTACCCACGGTGAGACTGCCTGGAGAACGAGATGGAAAAATTTGGATGT
GGCACCGATGCCTCAGATGTACACATGTAGATGGGGTTCCACCGGCAACC
CGCAGGGTGGTTATGTCTGATGCTGCTTGGGGTCTTTCTTTAGGAAAGTT
CTTAGAACTTAGTTTCTCAAACCATGCAACTGCTAATCGTGTTGCAAGTT
GTGGTCATTCTCTGCAAAGGGACTGTCTTCGGTACTACGGGTAATGACAT
TTTGTTAATCTAGGACTTTTACTCTACAACTTTAATATCACCCTTTTTGT
ATTTTTATCTGGTTAGGATTAAAATAATGCGGTACCAATATATTTATTAA
ATGTCTGTATGTGCATGTGTTTATGATTCATGAAATGTTTTTTGGTTATA
ACAGATTTGGGAGTATGGTAGCATTCTTCCGCTATTCTCATATCGATATT
TACTCGGTTTGTTTGCCCCCATTAGCACTTGAGTTTATTCCCCATTCACA
GCAGGATTGGATAAAGAAAGAGATGGCAGAGGTGAAGCGCACTCAAATTA
TGTGATATAATGTAGAATAATATTAGGACTGCATGTTTTTTGTCACACTC
CTAGAAATTTATACCATTTTACTTTTGCTACAGATTTTGAACAAGCAAGA
AGCTTTATACGAGGAAATATTGGGTTTACTTTATAAGATTGAACAGAGAA
GTACATCTCTTGGACAAGAATCGTCTACGAGAAATGAGTTGCATAAACAC
ATAATTGAGTTGAAAGACCAGCTCATAAAAGAAAGAGATGATTCTCAGGT
AAGCATGCAAATACAATATGTTTATACAGTAAGGCTCGGTGTCATACAAG
CACAAAAAAATTCCTTATAATTTTATATTTTAAATATCTTGCTGATTTTC
TGTTGCTTCCATGTTTTCTGACAGTGCATATATCAGCAATTTAGCAAAGA
TAGTTCAGAACTAGTCCCAGCGACAATGGATGTTTTTGACCTTAATCAAT
TGAGACAATCACTCCTGATTGTTTCACATGATTGGGAGCACCGGCTTAGT
TCATTAGATTCTCTCATTAGCTCCAATGCAGGGTTACAAGATTTGAGAAG
TGTTTCGTGTATTAATGATATTAGTCTTTCCTGTGACCGTGATAATGATG
GTGTCTCTGATCTGGTTTTGAAATTGCCAGATTTCCTCCAGAAAGATATA
CCGTACACACAAGACAGAGAGCCTGAAAAATCCCTGGTTGATTCTGGTGT
TCCTAAAGTTAACATGCCGATGTCATGCAAGACTAAGAATGAGACATTGA
CACACTTGGATGGGGAACCTACAGTCAACAAGACGCTCTTGGATCGTGCT
CCCTCAGCTGCATCTGAATTGTCTGATAAAATTGATTCTGTATGGAATGG
TACAGCAGACAGTCCGTTGAAATTGCCTTCTTGGAGATTGCTATCACCAG
CAAGAGTTCAATCCATTGATTCTGCTATAAGTATCCAAGAAAAGCTAATG
AAAGGATTACCGCCCTCATCATTTCATTTATTAGCAATTAGATCTTCTCA
CGCCTCTGGGGACTATGCAAACATGTCTAGAGATCCCTTACTTAATGTAC
AGAGGACTTATTCTCAAATGTCACCTCTTGAGGCCCAGAAGTTTAACCTT
TGGAACACCTCACACTCATTTAACTCGTCTGCATCTCTTTTGCCTGAAGG
GGCACGATTGGTACGTCGGCAAGATGGCCAGACAGATTTGACCATTGTTG
TTTATGACAATGAACCAACTAGCGTGATTTCATATGCTCTCAGTTCCAAA
GAGCATAAAGACTGGATAGCTGATGAGCCTTGTGAATTTGAAGAAGCCTG
GAATGCTGCTCAACTGAAGCGAGAGAATTCTGTGGCTTCAACCATTCCAG
CCTGGCAGTCTTTTGGTTCTGTGGACTTGGATTATATCCACTATGGAAGT
TATGGTTCTGAAGACGTTTCAACAACCATTAGTACTATGCTTACAGATAC
AACCAATAGCAGTTCCCATTTTAAAATTGCTTTTGAGGATGATAACCCCA
GTGCTGGAGGAAGGGTAAAGTTTTCTGTTACCTGTTATTTTCCAAAGCAA
TTTGACGTGCTCAGAAAGAAATGTAGCTGTAGCCAAATAGATCTTGTACG
TTCTTTGAGCCGCTGCAAGAGGTGGAGTGCACAAGGTGGAAAAAGCAATG
TGTACTTTGCAAAGTCTTTGGATGAAAGGTTTATTATAAAGCAAGTCACG
AAGACTGAATTAGAATCTTTTGAAGAGTTTGCACCTGAGTACTTTAATTA
TATGAAAGATTCCCTCGACTCCAGAAGTCCAACATGTCTCGCGAAAATTC
TGGGGATATTCCAGGTTGCTTGCAGTTTTACACCCGAGTACTTGAATATT
CTACATATATCCAGTTATTTATTACCGCTGTTACACAACATACATTTGTT
CCTAGTGTCTTGCTGGAGTTGGGTAGGTGGCATTGATACTACCTTGCTTT
CTCTAATCTTGATTTTCTCTTACTTTCAGGTAACCGTCAAACACTTGAAG
GGTGGAAAGGAAACAAAAATGGATCTGATGGTGATGGAAAATCTATTTTT
CAGAAGAAATATTTCAAGAATCTATGATCTTAAGGGCTCTTTACGATCTC
GTTACAATTCAGATACTACCGGAGTGAACAAGGTGTTGCTTGACATGAAT
CTCTTGGAAGCATTGCGAACAAATCCTATGTTTCTTGGAAGTAAGGCCAA
GAGAAGCTTGGAAAGAGCAATTTGGAATGACACATCCTTTTTAGCGGTAA
GAGAATTTTATCCAACTACATATAACAGATTCAATATTTTGCAATTTATG
CTACCGGAATAGTAATGTGTTAAAATATATAGTCAAGACCCATAATATGC
TTAAAGATATTTTATGCAAAGTCAAAAAAAAGCTTCAAGTGCATTACAAA
AAGGGAATGGAAATGAAAAACTCATGATGTTTACGATTTATTTGTACTTT
GATATCTTGATACCTTGAACCTTGATGCATCTGTAGGGTGCCCATTTTAT
TTCAGAAAAGTATTGGCCGTTTTTTTTAAGTCGGGCATAACTAGATTTTG
AGATCGGCATTCTTGTGCTGTGCAGTCTGTAGACGTTATGGATTATTCTT
TGCTGGTCGGAGTAGATGAAGAAAAGAAAGAGCTGGTGGTTGGGATAATC
GATTACATGAGACAATATACATGGGATAAGCACCTGGAGACATGGGTGAA
GAGCTCTGGAATACTAGGAGGTCCAAAGAATGCTGCCCCAACTATCGTGT
CGCCGAAACAATACAAAAAAAGATTTAGAAAAGCAATGACAGCTTATTTT
CTAACAGTACCTGATCAGTGGTCAGCATAAAGTTTCATTAGTTGATTTAG
GATTTGAGGTGATAATTCATGTTACATGTACATTATATCTAATCTTTTGC
ACAACATAATTGAAATAACCAAAGATTACTATTGGTTGATTATTACTTAT
TA