| NCBI Gene |  |
|---|
| Relationships |
|---|
| The mRNA, XM_017373721.1, is a part of gene, LOC108204339. |
| The genetic_marker, MK005666 K3110, is located in gene, LOC108204339. |
| 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_017373721.1 | XM_017373721.1 | mRNA | DCARv2_Chr1:41322466..41332068 |
ACTGTACATAGGACTGAGCCGCCAATAATTAGATTAGAGTCATAGAGTGA
CCTCTCTCTCTCATTCTCACTTTGTGTAGCTCTCCAACTCTCCCAATAGC
CGCGGCACCTCCCCCTCTCACGCCGCCGCAATGTCGCTCTCTTCCGCCAT
ATCTCCGTCATCTTACGCGGCCATCGCCGCCGCTTCCTCTGCACGGACTC
CCATTTTCAACAAGAAAAAGACGGCGGCGGTTCTCTCTCCCCTCTCTCTT
TTCCATCAGTCTCCCTCTCTCTCCAAGTATATCTTCTCTCTCTCTCTCTC
TCATTTTCTGTATCTAACATATTAAACTCATTGCCAAACTCAATTAGACC
TAATTGTAATGTCATTTGTGTATTTTACAAACTCTTTTTAACAATTCCTC
ACTACGTAATGCATAGGATCTTATTCATTACTGTAATTATTCACTAGTCA
ATTGACTATCTACGCATATACTTATTTGTGATCGAAAACCTTACGAGGAG
TCAGTTTGTTCAATCGTACTGATAAAGGAAGTGTTGCATAAGTATCATTA
CTATTGGGGGTTTTCAATAATATATTAAGGTTTTAGGAGAATTGGCTCGA
CAGTGATTATAGACATTTTTGTAAATTTTCCGCTTCTGTGCATTTTTTTC
TTTTAAGAGATTATTTGTGTTAGGTCAGTCCAAGTATCTGGTCACTTTTT
TACTTATACAGTACGAGCAAGTTTAATATGTTGTACGTTATACTACTGGT
TTATAATGATATGGAAACTAAATTGTTTCATTACTATTTCCACTTGTATT
ATGTTCTCCTTGCCAACTTTTATAGGTTAAGAAATTAGTGGCCAGTTTAA
TTCACAACTTGACATTCTGCGTAGTGACTGTAGTCACCTTTTTAAAACTT
CATTACCCGATAAAATTTGAAAAGTTACATGTCATCTTAGTCCAAAACTG
TATTTACTCGAGATTCTAAAAAAGTTGGATATTGTATCTATTTCAGAACA
GGTATATTTTTGCATCGGGGAAGAAAGGAGTCGTCGTCGAAGTTTTACAT
TGCTGCTTCCGTTACAACTGCAGGTTCTCCACAAGTTTGTTATAAGTTGA
ACGTAGTTTTATTGTTTCTTATGATCTTTGTTCATTTGATGTCTTATGTA
AATTTTGCCAACAATTCATCTGCAGTTCCTTCTCTCGATGACTCCGTTGA
GAAGGTTCAGCTCCCCAGGGGTGCTATGTGGTCTATTCATAAATTTGGAG
GCACCTGTGTGGGAAGCTCTGAAAGGATCCGAAATGTTGCAGAGATAGTT
GTGGAGGATGATTCTGAAAGAAAGCTAGTTGTAGTCTCTGCAATGTCAAA
GGTCACAGATATGATGTATGATCTAATTTACAAGGCGCAGTCACGGGATG
ATTCTTATGAATCTGCGCTCGATGCTGTTATGGAAAAGCACAAGTTAACA
GCATTTGATCTCCTTGATGGAGATGACCTTGCTAGATTTTTAACTAGGCT
GCAACATGATGTTAATAACCTCAAAGCAATGCTTCGTGCAATATACATAG
GTCCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCGATATGTGTGTGTGTG
CGTGCGCGGGTGCGTGTGTGTTTGGCAATCTTATATTGAAGCTTGTCTTT
TTAGGTGCGCTTTTATAATTAGGTTTTGGGTTGGGCTGTGTGGGTGGGGT
CTTGTGCGATGAGCCGATGACCTTTGTTGACGTCCTCAAGTAATTTTTTT
TATGATACTCGAAAACCTTAAGGAAAATAACAGGTCACAATAAAGAATCG
AATGGGAAATTAAATCCCAGTGCTCTGTTAAGACAGACGTAGCGATAAAT
TAAGCACTTGATTGATTACTTGTTATTGGGTAACACAATTGAGTCACTCC
TGCTGAGTGCTATGCAACATTTCCACTTATTTTCCTTCTGTAATATTGTA
GCATGCAAAAATTTGGCTAAAGCGCCACAAGTCTACATCTTGCTTTTCAG
TGTTCTCATTGATAAGGCTTGCCAAGTCATTTAGGATCTCACTGACAATT
AGTTCTTCATATTATGCTCAGCAGTTTGTCGAAAAGTACTAACTATTTAT
TTTAATGCAGCTGGTCATGCCACCGAATCTTTTTCGGATTTTGTTGTGGG
ACATGGAGAGCTATGGTCAGCTCAGCTGTTGTCATTTGTAATAAGAAAGG
TAGTTTCTTTTGTTCCCGACCCTCACTTTTTTTGCATGTTTAATAAATAA
CTTACATGGTTCCATGGTCTCCTAAATTTCTCATCTACTGCAGAATGGGG
GTGACTGTAATTGGATGGACACACGAGATGTTCTTGTTGTAAATCCTGCT
GGATCTAATCAAGTCGATCCTGATTATTTGGAATCTGAGAAGAGACTTGA
GAAATGGTTCTCCAGCAACCAGTGTCAGACAATTGTTGCTACAGGTTTTA
TAGCTAGCACGCCTCAAAATATACCTACAACTTTGAAAAGAGACGGAAGT
GACTTTTCTGCCGCTATAATGGGTGCTTTATTAAGGGCTGGTCAAGTCAC
GATTTGGACTGATGTTAATGGTGTATATAGTGCAGATCCTCGAAAAGGTT
CGCTGGCCTTACTTTTGGTTTTCAGATCTTTTATCACATAATACTCTCTT
TTCATGGTACAGTGGATACATAATTCATCCTGATATATAAATACTACATT
TTGCGCTCTAACATTCTAGGATAACCTGATAACCATTTAGATTTTGAGTA
CTTTCTGAAATATGTACGAACATTCTAATTTGCCAAAAATATGTTATGCA
GTTAGTGAGGCTGTGGTATTAAAGACATTGTCTTATCAAGAAGCCTGGGA
GATGGTGAGTTCAAGTATCTTCTAATACCTGTCAAAGTTGTAGTTTGATA
CCAACAAAATTTCTGAGATATATTGCATGACTGTGCAGTCATATTTTGGG
GCTAATGTGTTACATCCCCGTACTATCATTCCTGTGATGCGATATGACAT
TCCAATTGTAATAAGAAATATATTCAACCTATCTGCTCCGGGAACAATGA
TATGCCGAGAATCTGTAGGCGAAACTGAAGATGGGTTAAAATTGGAATCT
CATGTCAAAGGATTTGCTACTATTGATAATCTGGCACTCATTAATGTTGA
AGGGTGAGCTTGTATTAATATTTCTTTTATCCATCTACTCGATGTTGTAA
GTGGATGGCATGTTTCTTTTTGTCATTCACCATGCAAATATTGTGTCAGA
ACTGGAATGGCTGGTGTTCCTGGTACAGCTAGTGCAATTTTTGGTGCTGT
CAAGGATGTGGGAGCTAATGTTATAATGATATCTCAGGTTTCTGAATTCT
TCAAAAGATCTACTTTTTACATTTGTAAATTTGTGCACAGTATTCATTTG
CCGTAAAATGAAAACAGGCTAGCAGTGAGCATTCTATTTGCTTTGCTGTG
CCTGAGAGTGAAGTGAAAGCTGTTGCTAAAGCTTTGGAGGCCAGATTTCG
TCAAGCTTTAGATGCTGGTCGTCTTTCCCAGGTACACTATATGTTTAACG
GCTAAGAGCTAAAAGTATATCATTGTTATTTTGTGTTTAATTGTTGGGCT
CCATGTAATACATAAATATATACCTATGTTGTCTGGACTTGTAAGGTGCC
AACTGCCAACATAAATATGGGTCCAAGAGTTTTACTGTTATAAATATTTG
CATATTTTTGGCCTAAAATATAGTGTTAAGGTCCAGGCCATTTCCTGAGT
TATCGAGTTTATAAACGGGCATGGAGACATAACTGAAGAGTGAGGGTGAC
AGTCTGACAGAGGAATGCAAGATAAGTTCATATAATATCTAGGTTTTATT
AAACAACAAGCCATAGAAGAGAAGTTATTATAGTTTATGAGTACTTATTA
AACAAGCCAACAAAACTCCAGCAAGAAGACAATAAATATATAATGTGGAA
TGTGGTTTTAATACACAATAGATATAATAGGAACAAAATAGTAAATTGGT
CCAATGTGTGATATTGGTCAAAATATTTTTCAACTTGTCATTTTCCATGC
TGGCAAATATATATTGTATAGATAATTAGAGCATGAAACCTTTGTTTTAA
CGGCACCCTTTGGTGTAGACATCCGAAATGTATATAAGTGGTAATGTTCG
ATAAATGTCTCTAAATTTCTTTAATTTCTGAATCTTGAGTTTGACGCTTT
CAAAACTTCCCAGGTTGCTATTATTCCAAACTGTAGCATCTTGGCAACAG
TTGGCCAAAAGATGGCAAGTACTCCTGGCGTGAGTGCTACACTTTTCAAT
GCGCTTGCAAAGGTTGGTAGGCATATATTCGTTATTAGACTAGTCTATGG
TTCCTATCAAGTTCATTGAGATTGGCTTACCAAGATATTTAAATGCACTT
CATCATTTGGGTACCTATTGTGTTAATATAATGATACGTGATATGTTTAA
ATAGGTTTTTCATTTATTCCTGACCTGCTGATTACCCTTAACCATCAATT
TTGTACTTATAACTATGCAGGCCAATATAAACGTTCGTGCTATAGCCCAG
GGCTGTACAGAGTATAATATCACTGTAGTTCTCAGTCGAGAAGATTGTGT
GAGGGCTTTGAAAGCTGTCCATTCAAGATTTTATCTGTCGAGAACCACAA
TAGCAGTGGGTATTGTCGGACCTGGATTAATCGGAGCTACTTTACTTGAC
CAGCTCAGGGATCAGGTAAATATGTATTTAACTTCACATCAAGTTCTTTT
TTCTACTTCACTTTTCTCATCCTGGGTAGTTTGTGTACTTGAAAATGTTT
TAATATGTCGAGGTTTAATATCTGTTGTTGGCTTGTCTCTTGTTTTGACA
TTTGATATCTTTGTGTATCATGAAAATATGCTGTGTTAAATTTGATGTTT
GCAACTTTAGTACCGCGTTTATGGGCTAGATATATACTCTTGAGTTAGGT
TAAAGGCAAGCTAGCATTTTGTTAAATTAAATTTACTTATGAGTTACATT
GGTTTTTGAAATTGATCGTTTTGTTTGAAAATTCTCTATCTACCAACTTT
TTACGGCCAAAATAGCATGAATTATATGCTAATCATGTATCAATTCTTAA
CGTCAGGCAGCAATCCTCAAGGAAAATTCTAAAATTGATTTGCGTGTTAT
GGGTATCACCGGATCGAGAACAATGCTTCTGAGCGAAACGTAAGTTGGAC
ATTTTCATTGTTATATTTTTTTCCCATATACCAAATGTGACTTAACTTTA
TACCAATGCAAAAACAAAATCCGTAACATATCGCTGGTAGCTTATGTAAG
GCTTATGTTAAGTATCTGATACGGGAACTAAGAAAGGAGTAGCATTATAA
AGGTCTATTGTGATGAAATTGCTCTCATATACTATATTACAGGTCTTATT
TGCTCTTTAATTGTCTCATTCTGTGACGATTGTGCTTTTTCCTTGGTCTT
AGGGGAATCGATTTAAGTAGATGGAGAGAAGTCCAAAAAGAGAAAGGGGA
AACAGCTGACCTAGAAAAATTTGTACAACATGTGCGTGGAAATCATTTTA
TTCCAAGCACTGTTATAGTAGATTGTACAGCAGACTCTGAAGTGGCAAGT
CACTACCATGACTGGTTGTGTAGGGGAATTCATGTCGTTACCCCAAATAA
GAAGGCAAATTCAGGACCCCTTGATCAGGTAATGTGACATGGATACCATG
CAGTGATAACGGTCTAAAAATAATTAGATCTATTGCTTGAACTTAGTCAA
GTCAAATTATTACTGACCTATAGCCTCTACCTCAGGATTATGCACATATC
ATAATCAATATTTTGTTACTTCCATGTGTCTTACCAATGGTTCATTCTCA
TGTCTGGGAATAAATTCACTTCAGGTTAATGAATCAATGTTTGAGCACCT
CACCCAATTCATTTTTTGAACCCCAATTTCAGTATTTGAAGTTGAGAGCT
CTCCAGCGGCGATCCTACACACACTATTTTTATGAAGCTACTGTTGGTGC
TGGTCTCCCGATCATAACCACTTTGCAGGGACTTCTTGAAACCGGGGACA
AGATATTGCGAATTGAAGGCATTTTCAGGTTAGTTACACACAATAAAAAA
ATGGCAAATAAATTTACCAATTTGACCACATGAGCGTAAATTTTTTTGTA
CAAATATACAATGACTTCTACTTTTTTCTATTTGGATTAGTTAGCAATTT
CTGATTTGTTGGGGCCATTAATTTTTACAATTTGTTGTGAAAGTCAGCAT
AGAGCGGTGACTAAATAGTCTTTCTCTTTAGTGTGACTAAATATTGGGGA
TAACCTAGTGTTTTACTTTTAAAACCGAAGATGTTGGAGTCTTGAGTTTC
GTCGGGATGCTGAAAAAAAAAAAATGTATGCCAAGGCAATGCAATACCAT
CCTTTAAGCTATGTTTTCATAAGGGTTCTCCTCAAATCTATTTCGAATGT
TGATTTGGACAGAAGCTTGAGGCTTTAGTTGGTAAGTTTGGATGTATATA
TGCAAGAACTTAAAGATTAGTACACAAATGGATGTTTAATGGAGATTAAT
ACTTAAGCTGTATAAATCCTAACATGAGCTATACATATATGTAATATTCA
TGCCCAATTTACACACCCTAACAGCTGAATTGACGGTCAATGTTAAGTTT
AATTAAAGGAAATCATGTAAACAGACTGTACCTTTGAAGTCTCTAGTGAG
CAAATTGAGAATGGAGAGCAATTAATGATGCACTTGATATATTTGGACCC
AAAGAATTAGGGTATTGATAACCCTGTTATATTTATGTATACTATTTTTT
AGTACAAAGTCTGGCATATATAAAAAGTAAATGGTTTATTCATGTTCCTG
CTCCAACCCTGAAAGGGTTCTAACTCTAAGTATATGATTTCTAAATGCAG
CGGGACTCTTAGTTACATATTCAACAACTTCAAGAGTACAACATCTTTTA
GTGAAGTGGTAAGTGAGGCAAAAGCGGCAGGGTATACTGAACCAGATCCA
AGGGATGATCTAGCCGGAACTGATGTTGCTAGAAAGGTGCTCGTTTATAA
TTAATATCAAACGTGAACTTTATTTGTTTCCCTCTGCCTTGTACTAACCT
GTGCGTTGTATGTGGTAGATTAGAATCTTCTTTTATATTGAAGAAAGTAT
TGTAACTTACAGTTTCACAATGTTGCAGTGTCTAAATACTTATCGATCAA
AGCATAGTAGTTAAACTTGGTTGAATTTTTTTGAGCCTATGAAACAGTTA
GAATTGTAGGAGGTTGTATGCGAACCTAAAAGAATGAAAGGGGGGAAGAT
AAAGAGAAATTCTTGTGAAAGGGTGATTCTGTAAAAATAAGACGGGCCTT
GCTCAAGTGGGTTCCTTTAAAGTTGTTTGGTTAGTGTGGGTCTTATTTAT
GACAAGTTGGACTGCGACATTTGTATCTTTAGTATATATGTCATATTTCA
GAATTTTGACATACATAATTCTTAGAGTACTATTTGTCAGAGATATCAAG
CTAGGTAAGTCTTAACCAACAGCATGGCGGCCACCTCTTATACATGGAAA
GAGGAAACTTTCACAATCTGAAAGGAATGTTTACTTGTTATAAATGTTTC
TAAGTTGTGGTCACCTAAGCCTCACCAGTTACTTGCTATATTTTGCGGGC
TGTAATTTACATGCACTGTGAAATGAAGTAATATATCTGTAGCCTTATAT
GCCCTTTTATAATGCAGGTAATAATTCTTGCTAGAGAATCTGGATTAAAG
CTCGAACTGTCTGATATTCCTGTACAGAGCCTTGTTCCAGAACCACTAAG
GGTGAGGAATTTTTTAATTGTATTTTCGCATCTAATATAAAATATCTCTG
CGTATATTTTAGAGCGTTAATAATATGCAGCTTAAGAAAAAGCATTATAA
AAGCAGTCCATTATGGTAGGAAAAAAATAGAAGAATCATGAGTCCTACAG
TTTTGTTGGCATGTGTTAAAATAAGAAAAGTACATTGTACACCGGTACAG
TATGAAAGATTTGATAATTTCTTTTGTTGCTTTCCCTTGTTAAAATGTAA
CATTATTTTATGTAGAAAAGTCAAGTTATTCTGACAATCAGATAAAACTG
CTACTTATAGACACTGGAAAAGTTAAATAATACAGTAGAGTTTGATTTCC
AAATGGTAGTGAGAGTATTAATCTCTTTGTGTATCCTGTGGTGAATATTA
TATTGAATGCTATTGCCAATGTGTATAAACCTTTCTGGGCCAATGTGTAT
ATCATGTATCTTGTTGTATATATTGATGCTTTTATGTTTTTGTGATTATT
TCTTAAGGATATTGCGTCAGCCGAAGAATTTCTGCTACAGCTACCACAGT
TTGATTCAGATATGACCAGAAAACGAGAGGATGCTGAAAATGCGGGGGAA
GTGAGTTCTTACGCACACTTGTCAACTATACTATTTATACATCTATTCTT
TATGCATTATTAAATAAACCTATTATCTACTAACTGTAAATATCTATTAT
GTATCACTACAATTAAAACCCAACTGAAGATTTGTAAAGCCCTTTTTCTG
TTAAGGTCATCCTAATAATTTACAACTGTTAATTATTCAATTTAAAGATA
AGACATGTGTTAAAAACCTATTAGGTGTGTGGGTCTTTTTCTTAAAAGTG
TAACTTTTAAGTTTGACTTGCAGTTACATGGGTTATATAACCTTGAATAA
AAAAACAAGACAATCATACTTTGTTTTTTAACCTTGGTAATGATACATGA
AAATTTATTTAGCATATTATGGGCCTGGCGAAGTAGATATTTGTTTATGA
CCTAAAAAGTATTTGATAAATATCTGTGTGAAATTGGGTCTGCAAGTCAA
TATGTTGCCAGTTTTGCATCTGAGTCACATATCTTGTTATTAAAAGTAGA
AATGCAATAATTTACTAGTTTGAATGTGAGGAAACCGAATAGAAATACAT
ATTATTGAAGTTGACACACTGGATTGAGCATGTTGTATGATGCATCTTAT
TATTCTTATATGATATTTATGGGATTTGTAAACTTGAATTGTCTGAAGGT
TCTAAGGTACGTTGGGGTGGTGGATGCTGTAAATCAAAAAGGTGTTGTTG
AATTGAAAAGATACAAAAAAGAGCACCCGTTCGCACAGCTTTCTGGGTCC
GATAACATCATTGCTTTCACAACTGAAAGATACAACAAGCAACCTCTAAT
AATTCGAGGTCCCGGTGCTGGGGCAGAGGTGACAGCTGGTGGAGTATTCA
GTGATATTTTGCGGCTTGCTTCATATCTTGGTGCACCATCATAATCCATT
AGTTGAGCTCTCAATGTTTTACCCTTTGTCAGTCCAAATTATGTTATAGA
ATTTAGGGAGCTTTTGCCTATTATTAGGTTAGTATAAAAACACTCTTCTA
CACTGCATAAGAGAACACTTCCTGCAATTTGGGTTTCTTTAGTGGCTTTC
TAGCCTACCCAAATGTGACATAGTCTCGACGATGCAGAGTTCATAGAATT
GCTACAATGGGATGTATTATAGAACCAAGCCAATTAAAAGGTGTAGAAGC
ATCCTTATTTGGTACGGGAATTACGCATTAATAATGCCAAAGTGTTGTAA
CA