| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017402850.1, is a part of gene, LOC108227607. |
| The genetic_marker, MK008815 85036.48572, is located in gene, LOC108227607. |
| The genetic_marker, MK009661 6_2654882, is located in gene, LOC108227607. |
| 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_017402850.1 | XM_017402850.1 | mRNA | DCARv2_Chr6:2650748..2660726 |
AGTTTTTTTTAATCAAAAAGCAGTTGGTATTGTAAATATTTTAATCGTAT
CTGAAAAGAAAACCAGAGTGGGTACTCTACAGTATGTTATAACCCCGGTG
GTGACGACTGACGGCTAAAATTGTAAATGCAGATTCCAACGCAAATGCTC
TCTCAAGCTCGATATCTCTCTGTAAACAAGAACACCACACTCTTTTCTCC
CTCTACAAATCCCCCTTCAACCAATTTTAAAACCCCAAAATTATCTTTCA
AGTTGCGCAACCCAGTTTATAATTTCACCTCAAAGATGGCCACTCTTTCA
GATGGAGCTAACACCCTCTTGGATTTTGATTATAATGATGCGGAGCTTGA
TGGGTTTGCTCTCGTCGGGAATCAAATCGCTGATGCTGCTGGTGAAGTTA
TTAGGAAGTATTTTCGCAAGACTTTCGATATTGTTGACAAAGAAGATTTA
AGTATGTGATTGTGTTTATTTTGTTGGCCTTTCATATAAAGATCGAATCT
TTTTGAAATTTTAATTTCGTGTTCCTAGAATTGCTTAGTGTGTATCGAAT
GTTGATGATTTGTGTTATTGTTGTTTGGATGTTTGATATTAGGTCCAGTG
ACAATTGCTGATCAAGAAGCTGAGGCAGCTATGACTTTAATATTGCAACA
ACATTTTCCTCATCATGCAATGTAAGAAGTGTTCAATGTATTAGCCTCTG
ACTACCAACACCGATTATCGCTTTTGTTTTGCTACAAATTACTATTCATG
GCATTACAACGTAAGTTTCGTGAAAAGCTTAATTAAGTAATATGATGAAG
ATAATTCAGATTTATAATTCAACTGAATGGATTGAATGAGATTCAGTGAT
CAGATAAGTCAATTAAGATTGTTCGGTTACTTATTATCTAGGGGCTAATG
CAACTATGCATACTTAAATTTATCGAGAAAGTACATAAATTGTGCGCTCC
AATGTTTTCATATGTCCATGACGATTCTGCAATCTCAATCATTTATGGAC
CATTCTTGTTTGATAAATAACTCCCAAGTAATCATCTTTGTGTGCTCCAG
GGCCCTATTTACATTATCCTATGTAAATTTGCCCTAAATACCACATTTAC
AGCATTGACACCTGCGACTTATGTATGTTTCTCTGGTGGACTTCATCAGG
CGCAAAGGGGTTTCATGTATTATTATTACATGAGTATTCTTACTAATGTA
GTATTATGATTCGTGGAAAATTTATGTAAAGCATATTTGATGCCGACACA
TTTCTTCCATGATAGAGTACATAATAGCTCGTGCAATATACCACCATTTT
TTATGTTTTTATCTTACACATTCCAGAATTGCACATGTAAAGTTGTAAAG
GGCTCTCTTCTCTTGTTTCTACTATTGATTTAGTTGGTTTATGTAAGAAC
TATTTTGTCTGCAGTTTTGGAGAGGAGAATGGATGGAGATGTAAGGAAAA
GTTTGCAGACTATGTTTGGGTATTAGATCCAATAGATGGCACGAAGAGCT
TCATTACCGGTATGCTATCATATTTATTAAGTAATTACAATTAGGTTTAA
CTTGTGGAAAACTTCATAACTTCTTGAATCTTTCTAGGAAAACCTTTGTT
CGGAACACTCATAGCTCTGCTACATAGAGGAAAACCGGTAAGAATCAGAT
ATCACTTAGTTGTAAGTGGTCACAATGGTTAATTGGATGATAAAGCATAA
TACAATGTTTTTAACAAAATACATTTTATACAAAGAAGCAAACATTATAT
AGGGAGATGGTCCCTGACAAGTGATTATTGTCAACAACCTATATGCGGTC
TTTCCGCTATAAAAAATAGCGGATAGATTGCTGCAACAATCACTTTCCCG
GGACTTGAAATCTGTATGTCACAAGGTAACTCAATATATTTGTGTGTGAC
GTGCCGCGTGCGAGCATAGATGTATTGATTGCTCGTTCACATGACCATTT
TCTTTGTCTGATTATGGCTAGCATAGAAACGGGTTTTTTTTTTTTTTTTT
TATATTAAAATTTTGCTTTGAATTCCAGATATTTGGAATAATTGATCAGC
CTATACTAAGGGAAAGATGGATAGGTATTACTGGAAGAACAACAACGTTG
AATGGACAAGAAGTCTCTACACGCAAGTGTGCAAAGCTTTCACAAGCCTA
TCTGTATGTTCACTTGTATAACATAATTCCCTGTTTGCAAGATATAAAGA
CGGATTGGTTTGAACATCAAAGGATAGAACAGAAAGTAGCGTAGCATACA
AAATTATCAAAATGTTCTCCAGATATATGGAGAAAACCTTCAAGTTTATG
AATGTACCCAAGTTTTCTAAAGAGAGCATATGCTTCAATAATATTGTTGA
TTTAGAAACTTTTCTGATATAGGTACACGACCAGTCCTCATCTTTTCAGT
GGTGATGCTGAAGTGGCTTTTGGTCAAGTTAGAAGTAAGGTCTGTTATTG
TTGCTTATTTATCTTAGTAATGTTTTTTCAAAGTGCATCGACTCAGAAAG
CGAGAAGGAAGTGAGAACACAAACTAGTTCAACTCCTCAGCAAACTATTT
TGGCTCAGCATAGCGCCAAATAACCAATGTCTGTTGTTTGACTATAATAT
AGTGATCTTAAAGGGGGTTTTACTAATGAGATATAGCGACAGGGCATATC
TTTATGTTACTTTCTACCTCCTTTTTGACAATTTAAGAGTTGAAACTGAA
CTTCTAATATTCTTCCCATGTTATCTTGTCTTTTTGTTAGTTTCCATATC
GATCTTCTAAATATTAGCTTAAACAGGTAAAAGTGCCACTATATGGCTGT
GACTGTTATGCCTACGCCCTTTTGGCCTCTGGATTTGTGGATCTTGTGAT
TGAATCTGGCCTTAAGGTCAGTATATTTTTTCATTCTCTAGTTGCTTTAC
GGGATTATTAGGCGTTCTACTCCTGTATGTTTTGAAAAATTTATAATTGT
ATATAAACCTAGACGAGCATAGCTAATCAGTGATCTTTATTGGCTTTGTT
CGAATTTCAATATCAAATGGACAGATGTATGACTTGTGGATATGTATGCA
ATTAAGTTGCAACTACAGAGCCTGTGTTATACATTGTTAAGCTCTTGCGT
TTCATAATAATTTTGGAGGAAATTATTTGTATGACACCAACTCTTTTTTT
TTTTTAATTATAAAAATGATCCAGTTATTTTTTTTGCAGCCATATGATTT
TCTTTCACTTATACCGGTGATAGAAGGCGCTGGCGGAGTTATAACTGATT
GGACTGGATGCCATCTGAATTGGGAAGCTTCTTCAGATTCACATGCACCA
AGTACAAATCTTATCTAATTCAATTTATTGTCAGGCTTTTGTCATGTAAT
TTATATGATTAAACTATGTCAGGATCCAGGGTTTAGAAATGCAGAGATAA
AGGTATTTTTGGTGTTTTCTGATTTTTATGCAGAGAATTAACAGATTCTA
GGTAGAGTTTACAGAGAAACAGGGATTAAGAGAGAGATTTAAGCTACAGA
AATAAAGAATTCAGAGAGATTTGCACACACAAAGGACAGAAATCAGTTGT
AGAGAAAGTAAACAGAATTCTAGAGAGAGAAAGAGATTGTGGAAACTAAT
TCCACTTTCTGATAAAATGTTCAACATCACGGAATTACAAACTTAATTAC
AGACTGAGTTTGGTATTTATACTAGTCTTTCCTCTATGAATTTGTACTGT
TTTAGTAATAGACTAAAATTGAGGGCAATTGACAAAAATAAAAGCTCCAA
CAGTGTCCTAGAAATGCCTTAAATTGCTAGGACATCTTTCATCTGCCTTA
TTTCTAAGGCTGCCATACTCGAGCCTCATTTTTTTAATAATAAAATATTA
TTGTTCCCTTGCCCTCCGCACTTACAGTTCAAATATATTAATATTTAATA
ATAGGGCTTGTGGATAAGGATTCTTGTTGGAATGAATGTACAAAAATGAT
GCCATAAACTACTAGGACACTATATTTTATTATATTTACGAGCCAATCAC
TAGGACACTCTTGGACTTGCTCTAATAGAGCAAATAGCAGATAGGTCATA
CTACTATTACTAATACTTCATACTACTATTACCAATTCTGCAGCCAACTT
CCTAACATTCATTCCCCCTTAAAAAGTCACCATGTCTCCTCATCCTCCCA
TGTGGCTTCAACCACATTGCAGCCCTGCCATTGAACTAGCAGCTGGTACA
CCACCTCCTGATCATAGACTAGAGTTCTGCTTTCTAGCTTCCATAGGGGC
CTCAATTCAAGTTTTCCTTGCTAGTTGCTCATTAACCTGGCAAAGCTGCC
TGTGCACTGTCACCTGACCTACTTCTTTCTTCAATTGAGAAACATGGAAC
ACAGGATGCTCCCAGCTTATAGGCCATGTTTCCAATTTTTTTCACTATAA
GTATCTGGTAAGGGCCAAAGTATTGGGCAAGCAATTTTAAGTTCTTTCTT
ATTGCTACAGTCACCTGCCTATAAGGCTCTAAGTCTCAAATAGACCCAGT
CACCCACCACAAACTCCCTTTCAGACCTGTGGGTGTCAGCATAGCTTTTC
AATCTCACCTGAGCTGCTTCAAGAACTTCTCTTAAAACACTATATTGTTG
CTTTTGTACCAGCATTGCCTCCAAAGAAGATATATTAGTATGAGTTCTTG
ACAATAACTGTAGATGCCTAGGTGAAAGGCCATAGACTAAGGAGAATAAT
TTACAGCAGTGTGGAAACTAGTGTTGTACCCCCAGTAGGAAGTCAACCAG
CCCAGTTCTTAGGTATCTGACTTGTCGTACTCCTCAAATATTGTTGCAAA
CATTGATTTACTCTTTCAGTAAAACCATCAGAATAGAGGTGATAGGCTGT
ACTAATACACACACAATCTGGTGCCTGATATTTTGAATAAAGCTCGCCTT
CACCTATGGAAAGACTATCTATATCACTCACAATTGTAGTGGGCATTCCA
TGCAACTTTTATATGCTTTCGAACATATTCTTTGCTGAAATTGGATGTTG
AAGGGCTACAAAGTGTGCAACCCTGCTCAACCTATCAAGTACCACCCAAA
TGACCTCAAATCCTTTGAATTTAGGGAAACCAGTCTTTAAGTCCGTAGCT
ATGTCCTTGCTAGGCTCACGAGTTATAGCCAATGGCTGCGCCAGTGGCTG
CAGCAAGCCTGTTTTATTTAAAGTCTCTCCTTTGACTGCTTGACTAGTGT
CACACTCCCTAACCCACCTACCAATGTCCTGCCTAGGCCAATAGAAATAG
TTAGTAATCCTTTTTGTAGTAAACCTAATGCCAGAATAGACTCAGACACC
ATTACTGTGCAGCTCTGTGAAAATTTGCTGTCTCAATTCTTCTTGACTTC
TAATAACCCATTTACCTTGATATTGCAATAAGCCTTGAACTAGATAATAA
TGCTGAGGACCTGTTATGAGTCCGAGAAAAGGATCTTGTCACATGTCTGT
GAGCATGAGAAATCCCTTTCATTTTCCTGTTCTTCGAGGAACCTATCCTT
GAACCTGCAACTGTGATTTGTTAATTGTGATCTTTAGGAGATCACCAACT
CTTCTTTGACACGTAATTTGAGAGAAATCTGAATGAATTTTTATTCCATC
AGTTCCTTCCTTTAAATAGGATTACAAATTATTATAACTGACGTACTCCC
CAAGGAATAAAGATACTAGTCCTGGACAATAGGAATTATAGATTTACTTT
ACCTCCTAAAGTTTAGCTAAGATATCTGGTGGTATTTTCTTTGATATTTC
TTTCCAATAAAAGCATCCACAACAGGACCCTGTTTGTAGCAGCTTCAATC
ATAATTTCGTTCACCTCTTCATCACCCTCATAGCTATGAAGACTTTGCCC
CATCCAAGTTGGTACTATGGCTATTTGGTAGCATCGACTTTTTATCTCTA
ACTGGGACTCTTCATTGAACTCTACTGACCTCCCTTTGCCACAAACAGTA
AGCTATGAGCGCCATATTTGCACTTCAAGTCTCCTAATTGTGCTGAACAC
TGTAGACCTAAGATAATATCCCATTCTTGTAGATCTACTATCCTTACTTC
AGCCGCGAATTCCACCCCATCTAGCTTCCAATTGAATTCTGCACAATTGG
TACCTTCCACATCTAGCTTCCAATTGAATTCTGCAAAATTTGTAACTTCC
ACTATCTATTAGTAACTTCACCACTTTGTTGTTATATAATGTTTTAAAAT
GCAATGGTTGCTTGAACCTGAGGTCTTCCCTTTCCAAGGCTGTCAAAACC
ACCCCTTCCTCTTGTTCAATCTCTTCATCTTCTGGATACACATCACATCA
TATCTGGGAGGCTCTTTAATTTCCCTTATCCGCACCGGCTACCATCAAGA
AATTTTGAGGTCTTTTGCATTTATGTCCTTTTTTTGAAGCTTTCTCATCA
CAGTAATAGCACAAACCCTTCTGCCTTCTCTCGTCCCTCTGAGTATAAGT
GACAGGTTTAGGTTCAGAATGGATCAATTCTGGTGCTTTACTTGGTATTA
GTATGGGACTTCGATCAGCAGTTATCTCCTCATGCTGCTTGTGGAATTTT
TGGATTCTAAAGGGTTTGAAGCTCCTGTTTTGTAACTGTTTCCGTAGGTA
ATATACTTCTTTGGCTTTTGGCTGTCTGCTCATAATATCTTGCCAATCTG
AGGACTTGTGCCAAGTTGGGTTCGAGCCGCCTTCTCGTTTCCTTTATCTC
ATTCTGCGATCCTCCCACAAAGGTTCCAAAAAATATTCAGAGGTCAATCT
AGGACTTTCCTTAAGAAGTTGACCTTGCATTTCTCAAACTCATTATAGAT
CCTCAGCTGATTTGGTTTTGGTTTGCTGCAACCTCTTAAAATTTTCAAAC
CCCAAGCCAGTGTCCAACACATATCTGGCTATGAAAGCCTCTGTGAATTG
CTGCCAGCTAGCGCCATCCGTACCAATTATAAAAGATTTATACCAAGATC
TGGGAGTACCAGTAAAATGCATTGCTGCTATAGCTGATCTCTTACTGTCT
CCTACTTCATATATATTGAAGTACTCTTCACAGTCTCTCAACCACTCCAT
GGAATCACTGCCTTCCTTGTACACTGGAAAAAATAGTTTCGAGTGCCTTA
GACTTTGAGATTTATGGTGAGTTTTCCTTGATCTACCTATGTTCTGGTTT
CCTTCTTCAAACTTAAGTTGAGTATGAAATTTCTGCCTTTCATAAGCAGC
GTGCAAGGGATCTCTGAAAACCCCTCTTTGTATAGAGGACTGACATTCTC
CTTGTAATCAGCCTCTACCCCATCGTTCCACTCTATTCCTTTTTCATATT
ATCATTCCTGCTGTTCAAACCTGTCACCAACCTCTCAATTTGCTCTTGCA
ACTTGTCAATCTTGTCTTCGATGTCTATCATGTGGCCTTGTAAATCCTGT
TTAATCATGTTTAGGGTTCCCTGGTGAGAAGTCTCCGCACTCCCTGTGTT
GTGTTTGTGACTCATTTCTCTCCGACAATTGATCAGACACCTAGAGTTCA
CACATTATTCACTCCTTACTACACAACTGCTGTAACTACAATCGACTCCA
GTTCACCTTCCACACTACAACTGTACAATCGACTCAAGTTCACCTTCCAC
ACCACAACTGTACTACAGCTTACTCCAAGCAACACAACACCACTGCAATT
CGCAATCAACTTCACAGTATACACCTTACACAACAATTCACAAGCCAGAA
CAGAGTACAAGTGCACAGAACTTCACCAAAACAGATGGCAACACTTCAAA
CTGTACTGTAATCCAAAGTTTCACAACGCACCACAGCCACTACTTTGACT
CCTATGAAATTATGAACTCCACGGAACCTTTTTGACTTCAACACAACTTA
TTCTTTCGGAGCTGACGTAACAAACTATACGAGGCCCCCTACGAAGCCAA
CAGAAAACCGATCCAAATAAAAAGAAAAAAGAAGACAAGGTTTGATTATG
GTAGTATACCAGCCACCTGTTCTAGAACTTCCAGTTCCAATTGGTGCATA
TAGACGGTAAATGCTTTTGTATGTATAGCCACTCAACAAACTAGTGTAAT
CGACTACAGATATACTGAAACATCTCCATTAGCACCCAATTTCAACAGAA
TTTTCACAGATCTGGAAATATAGATTAAGAAACAGAGCACCTTTACTCTA
ATAACAAATCTCCGCACTTAAAGGTTGCGATTACTGAGATCCTTAGATTG
CTCAGCCCGCCTTGAGTTGCACAACACAAACGAAGCAGATCTTAGTTTGC
ACCTCTGATACCATTTCAGGATCTTGGGTTTAGAAATGCAGAAATAAAGG
TATTTTTGGTGTTTTCCGATTTATATGCAGAGAATTAACAGATTCTAGGT
AGAGATTACAGAGAAACAGAGATTAAGAGAGAGATTTAAGCCACGGAGAT
AGAGAATTCAGAGAGATTTTGCACACACAAAACACAGAAATCGGTCATAT
AGAGAGAAAGTAAACAGAATTCTAGAGAGAGAAAGAGGTGGTGAAAACTA
ATTCCATTTTTTGATAAAATGTTCTGCATAACAGAATTTGTTATAAACTG
AGTTTGGTATTTAACTAGTCTTCCCTCTACTAGCTTGTACTGTTCTAGTG
ATAGAATAGAAGATTGTACCCTTCCTATTACTATTAGAGCAAATAGAAGA
TGGTTCATACCACTATTACTAATACTGCAGCCTGACAAACTACTCGACAC
CGAGGTACCACTGATAAACTAATTATGCACAAAAGTCTTTCACACATTAT
ATGTAACTATAAGGATTGGCATTGAAAGTACTGTTGACATTCCAAAACCT
TCATTATTTTAGAAAAGAAAAACATAGTTGGAAATTTCTATTTTGTTGCA
GCTTGAGGTTTAGAAATCAAACTGAATGTTTTTATTGGGTCGCGCTCAAA
AGAAACCAATGCTTAAAATAGAACCATAGAACCACTGAGGTTCTGCTGCA
GAACCCTATATTTTACATAGATTTTCATGATTCAAATTCAAATACATGTT
TTTTTGCATCGTTGTGTGTGCTCAAAAATAATTTCAAAATATAATACATA
AATAAGACATTTTTTTCATGTGCAGTTCTGCTAGAACCCTGACTAATACT
AGAAATAAGGTAAGGGTTTTATGTCTAATGGTTCTGTGTGGAACATGACC
CTGTTTTTATTAAACTGCGGCCCTTGGTCATTTATTTGAAACATAAAAAC
AATGTCCGTCCATCCTTTGCAAATTTGAAATTCCAGCCTCTAAAATGCAA
AAACATATAAAATTCGGCCACCATTTTGGATCTTACTCTTAAATAAATGT
ATTTCTTTTGTGGTTGCCAAGTATAAAATTGTTGTCTTCTGCTGCTGAAA
ACTGAAAATTATATTAATCTTCTGTTACTGCCATGGTTTTAAATGTAGAT
CTAAAGTTAGTTCAGGGGTGGAGCACCACCATCGCTCAAAGATCCTTATT
ATATAGAGTCTAAAAAGTCCATATCATAATATTATTGATTATTCTTTTCT
TTCAGGTTTTAATGTGGTAGCAGCTGGGGACAAAGAACTTCACCAGCAAG
CATTGGATTCACTTAAATTGTATTAGTTGCATTGAACCTGCGTCACATGT
CACAGGATGCCTTGGTCGAACTCGTGCCCGCCAATCTTTACACATGCCCT
ACAAGCTACATGTTCATATTTGGGTCTTGTATCTGGAATCTGTTGACTGT
CATGTCATATCAGCGGTAGAGAAGATAAGAGAAGGCCAAACTATTCAGGC
GAGTTGCTTCCTCACAATATACCACAGCCATTGTAGGGGAGCAACTATAT
TTAAAATGTATAAACTTTGTTGGGCAGCATATAACAACCTTGAGAAGGTC
CATCTTTTTAATTATTCAGTCAACTTCTGAACTCGATCTCTTCTAAATAG
CCCATCAGAGATAATATGTGAGAATATGTACCATAAATACTTTGTATGAT
TTAGAAAAGAGTAAAATAGTTTCTTCAA