| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017387801.1, is a part of gene, LOC108215343. |
| The genetic_marker, MK004960 K2404, is located in gene, LOC108215343. |
| The mRNA, XM_017387802.1, is a part of gene, LOC108215343. |
| 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_017387802.1 | XM_017387802.1 | mRNA | DCARv2_Chr3:309123..318043 |
| XM_017387801.1 | XM_017387801.1 | mRNA | DCARv2_Chr3:309123..318043 |
TCAAAAAATGATGAGCGAGTGTGGTAAAACAGTTTGAGGAAGAAAAAGGG
GAATCGTCGTCTTCTTCAATCTCCTCAAGATTCGTGTCCGTACAGCCATG
GCGCCGATGAGGAAGTCAAAAGCACAAGCTGCATCACTTAAAAATCAACA
ACAACAAGAACAAGAAGCGTGTATTAAATCGCCGTTAAACCACTGGTCTT
TTCTGGTACTTTCCTTCTCTACTCATTTCTGCAATTAATATTTGTATTCT
TTTATTGTTTCTATTTTATTAGGTTTTTAAGGACGATTTCAAGTCGTAAG
CTAATTATAATGCGTTACATTGTTAATTCCATGCTATTGATGTTAACTAG
CGATGTTTTTGATTAAGATAGATGTAATTTGTTATGCTTCTCGATTAATT
GTTACTTGTTAGTCGCGTAGTTGTTAGGTTAAGAACATGTGTTTTTAATT
ATTCCGTACTAGTAGGGACTCAGTGTCACGAATAAGAGCTGGAGAATATT
ATAAATTACCGTTGGAATATGCTTTTGTTTAATTGTCTGATTAGTTAAGA
ATCATCTCTATCCTAGTCATGTAATAGTAGTGGAAGAATCATGTGGATAG
CACGTGTCTATTAGCCTAATGGTCCCTGCTTTGGCCATAAATGTATGGAG
AAGGACAATGTACAACGCATGGATTAAATGAACTTTGTTTTTCTCTTGCA
TTTTCCTGTATTTTGTCTTCCTTCTGCATTTCAATAGCTGTTATCATAAC
AAACTGGTATCAGAGCCGTCCTCCTCTTGCCTGTGTTCCAATGGCGTCCA
ACCCTTCGTTACAAAATCATGACAAAGCTATCTCCACCCTGGAGACGACT
GTGGCTGCTCTTCAACTTACTGTCAACGACACAAAATCTCACTTATCAAC
GGTGGATGCTTCCCTGGCCACCTTGGTTGCTTCCAACAATGATATTAAGA
AGAGTTTCTTGGAGTTGATGTCGATGGTGAAGCAAGATCTTCACACTCGT
AGCGCTGAGGGAGATGGTGAAGGCAGTTCTAGCCACCATGTCACTAGCTC
TACAAACCCAGGTACTCTACCCTTAACCCTCCATACTCCAACTCGTTTTG
GCACTATCGTTCCACCTGCTTTCTTTGATGAGCATGGCACTATGATTTCT
GGTACTCCTACCTCCTCAGTCAATAAGCCTGAAACTACTATGCCTACCAC
CACCTTACCACGTACCTTGATACCCACTCCACACAGTGAAGTAATTATGG
GTCACCCTCAATATACCTCTATTCCAATTGTTCCCAGACCCTCAACTACC
CTGACTACTCACTACACAGCCTATCAATCTCAAAACCCTCAACACCTCCA
AAACCCCAACCCTCATATGTTCCTATTCCCACCTTACCAGAGTAACCAAC
CAAACCCTTATGCACCAGGGTTCTTTCCCTCACTACACACCTCATTACCC
CCACCTTTTAATCCTTTCTCGACAGTGGTCACTACTATCCCAAATCCACC
CCCAAGATCCACCTTCAGCAGTCCAGTTTACAAACCCCCAAAGGTCGACT
TTCCTAAATTTGATGGCAAGGACCCTCGTTCTTGGGTTAGCAAATGTGAG
AAATATTTCTTGTTACATCCTTCCTTGGATGCGAGGGCTAGAGTTATTTG
TGCTTCCCTCTATCTTGAAGCTGAGGCTGACATTTGGTTCCGATCTGTGG
AGGAAGACAAGCCCTGTTTACTATGGCCTGATTTTGTTGAATTGATTTGT
AATCGTTTCTCACGAGTGGGCTATGAAAATTTGGTGGGTCAATTCACTAA
ACTAGTGCAGAAGGGTCGTGTAGAAGAGTATATCTCCCAATTTGATGAGC
TGCGTAGCCATGTAATGACCTTGGTTGGCCATCATAATGAGTCATACTAC
ATTGACACATTCATCAGTGGCCTAAAAGAAGAAATTTCACAGGCCCTCTA
CAACCACCGTCCCTCCACACTGCAGGAGGCCAGAAACATGGCACGGGGTC
AAGAGTATTTGTTGGGTGTTCTTGACAAGCGTTATAAAAGTAATGTTGCC
AAGCCAAATCCTAGTTCCATCCCTCTTAAATCCTTTACCCCTAAAAGCTT
CACACCTTATGTTCCTCCTAAAAATAGTGACTCTAAACGACTCACATTGG
ACGAGTTGAATGAGAAAAAGAAGAAGGGGTTATGTTTTCATTGCGATGAA
AAATTTACTCCAGGGCACGACTGCAAGAAAAAGAAGCTTTATGTTATTTT
TGGTGATGAGCCTGAGGCAGCAGAAGATTGTGAGGATGAAATGGCTGTAG
TATGGGGAGAGGATGAGAAATCTGAGGAGCCTCCTGCGGATAAAGATGCT
AGTATATCCATACATGCTGTCTACGGCAGTCGAGGGAATAACACTATTAA
ATTACAGGGCAGAATCAAGAACATGCCAATCAGTCTGTTAATCGATAGTG
GATCTACTCACAATTTCTTAGCCCAAGGCTTAGCTAAGAAGTTAAAGTTA
CCAGTTAAATCATGTAACCCTATCAATATCACTGTAGCCAATGGGTCAAG
CTTGAGCTGTACTTCAGTGAGCGAGTCGGTTAAATGGAAGATGGCAGAAA
GGGAGTTCCACGCTGATATGAACATCATTCCTTTAGGTGGATATGATGTA
ATACTGGGTGTTCAGTGGATGAAACTAGTCAGTCCCATCACATTTGATTT
CACTAAAGGGCATATCACTATAAATTGGCAACAGGAGAAGGTGATTCTGC
AGCAGGATAATAGATCACCCCAGATTATTGTGGAAACAGAGACAAAGGGA
GCTGTGAGGCAAAATACTGAGGAGGTGTACTTCCTATTACAGATCTCAGC
CACAAATGAAGGAGAGGGTAAAGAGCAACAAGTCAGCAAGGAAATTCAAG
GATTGATTGATGAATATGGAGACATCTTTAACATTCCTACTGGATTGCCA
CCTCCAAGAGCTCAGGACCATGCCATACCTATTAAACAGGGGAGTCAACC
CATTAATTCCAGGCCTTACAGATGCCCCTATTTCCAAAAGGAAGAAATAG
AGAAGATCACAAGGGAAATGCTGCAGAGTGGCATTATTCGAAACAGTACC
TCACCTTATGCTTCCCCCGTTTTACTTGTGAAAAAGAAAGACAATACATG
GAGAATGGTGGTGGACTATAGAGCTTTGAATTCTATTACTATCAAAAACA
AGTATCCAATACCTGTGATTGAGGAATTATTAGCTGAGCTACAAGGGAGT
TCAATCTTTACTAAGTTGGACCTAAGAAGCGGGTACCATCAGATAAGAGT
CAGGGAGGAAGATATCTTCAAAACGGCTTTCAAAACGCATCAAGGCCATT
TCGAATTCTTAGTGATGCCGTTCGGCCTCACCAATGCACCTGCAAGCTTT
CAGGGTTTAATGAATGAGATCTTCAGTGATTACTTGAGAAAGTTCGTTTT
AGTATTTTTTGACGACATTCTTATCTACAGCAAAAATGAAGCTGAACACT
TGGAGCATCTAAAAACAGTCTTTGAACTGTTAAGGTTAAATCAGCTGTAC
GTCAAGAGAAGCAAGTGTGAGTTTGCTAGCAACCAGATTGAGTACTTAGG
CCATGTCATATCAGCCCAAGGAGTAGCAGCAGATTACAATAAAATTAAAG
CTATGGTAGAATGGCCGATCCCTAGAAACATAAAAGCTCTGAGGGGGTTT
CTCGGGTTAACAGGGTACTACAGGCGCTTTGTCAGAAACTATGGGGTGAT
TAGTAAGCCCTTAACTCAGCTACTAAAAAGGGGAGCATTTTCTTGGAACT
CTGAGGCAAAAGTTGCTTTCAACCAGTTAAAGAAAGCAATGAGTGAGACT
CCAGTTCTGGCATTACCAAATTTCGAGCAAACGATTGTGATTGAAACAGA
TGCTTGCAAAAATGGTGTCGGAGCGGTTATGATGCAGAATAACCGACCTA
TTGCTTATATGAGTAAGGCACTCAGCTCAAAGCATCTGGGATTATCTACT
TATGAGAAAGAGATGCTAGCAGTGATCATGGCAGTTCAAAAATGGAGGGA
GTATCTCTTGGGACGACAGTTCGTAATTAAAACTGATCATGAAGCCATTA
AGTATATCATGGAGCAGAAAATATCAACGGGATTGCAGCAAAAATGGCTA
TCCAGACTGTTAGGCTATGATTATGTCATCACTTACAGGAAGGGAAAAGA
GAACATAGTTGCTGATTCCCTTTCCAGAATGTATGAAAATACTGAAGAAT
GCTCAGCTATTACTGTCATCAAACCGGCCTGGAGGGAAGAAATTCATGAG
AGTTACAACAATGACAGCCTTGCACAAGAGGTAATGTCTGAAATTACTAT
CACTGGGGGGGCTGTTAATAACTATAGTCTGGTGCAGGAAGACCTCAAAT
GGGGAGGGAGATACTATGTAGGTTCTGGCAACGATTTGAGGCAGAAGATC
GTGAGTAATGTGCACAACAATATAGAAGGGGGACACTCTGGCATTGCAGC
CACTACAAAAAAGGTTGAACAACTCTTTTACTGGCCAGGATTGAAAGCTG
ATGTGACAAAATTTGTAAAGGAATGTGACATTTGCCTCAGAAACAAATCA
GAACATGTAGCTTCCCCAGGTTTGTTGCAACCAATCCCTGTACCAGATTA
AGCTTGGGAAGTAATCTCCATGGATTTTATCGAAGGGTTACCTAAATCCA
AAGGGAAGGATACCATCTTGGTAGTAGTAGATAAGCTCACCAAGTACTGT
CACCTCATCACTCTGTCACATCCTTACTCAGCTACTGTAGTTGCTCAAGA
ATTCTTGCATCAAGTGGTTAAGCTCCATGGTACCCCAACTGCTATAATTA
GTGATAGAGACCCAATATTCGTTAGTGCATTCTGGAAGGAGCTATTTTCT
GTGCTTGGAACAACCATCAAGTTGAGCACAGCATACCACCCACAAACAGA
TGGGCAAACGGAAAGGGTGAATCAATGCATAGAGATGTATTTGAGGTGCA
TGACTGGTCAGAAACCCTCGGATTGGGCAAGTTATATACCCATGGCAGAA
TGGTGGTATAACACCACTTTCCACACTGCTGCTGGAATGTCACCATACCA
GGCACTGTATTGCTGCAAACCTCCGTCCATATCATACCAAGGTGCTAAAT
GCAAAGATGCTGCTGTGTCCAATTTTGTGAGAGATAGAATGAGTACTCAA
CAGCTTCTCAAGGATAACTTGGTCAAATCTCAAGAACGAATGAAATTTTA
TGCTGATAGGAAAAGGAGCGATAGAGAATTTGAAGTTGGTGATGCTGTTT
ACTTAAAGCTGCAACCCTATAGACAGATGTCCATCAGTCTAAGGAGGAAC
CAGAAGTTGGCAGCAAGGTATTATGGACCATACACAATCACAAAAAGGAT
TGGGAAGGTAGCATATCAACTGGAGCTGCCCAATAGTGCCAAGGTTCACA
ATGTATTTCATGTATCCCAATTAAAAAGAAAGCTGGGTGATGCTGTGGTA
GTGCAAACTGAATTGCCTGGGAGTAATGATGCTGGTGAGTGGGAGCCTAG
ACCTGTTAAGATACTGGAAAGAAAATTGGTGAAAAGGGGTAATATGCCTG
CAGTCAAAGTGCTGGTTCAGTGGGAGCATAGCGGACCTGATGGAGCTACT
TGGGAGCACTGGGACAAGTTTACCAGGAAATATCCTGATTTTTATCCTTG
AGGACAAGGATTATTTCATCTGCAAGGGAGTTGTCACGAATAAGAGCTGG
AGAATATTATAAATTACCGTTGGAATATGCTTTTGTTTAATTGTCTGATT
AGTTAAGAATCATCTCTATCCTAGTCATGTAATAGTAGTGGAAGAATCAT
GTGGATAGCACGTGTCTATTAGCCTAATGGTCCCTGCTTTGGCCATAAAT
GTATGGAGAAGGACAATGTACAACGCATGGATTAAATGAACTTTGTTTTT
CTCTTGCATTTTCCTGTATTTTGTCTTCCTTCTGCATTTCAATAGCTGTT
ATCATAACACTCAGTTTTGTTATTTTTGTTCGGTTGTTTGGATTGAACTA
ATTAGTTTATATAGTTTGCAAACTTGGAGTTACATGCAGCAACTAGTGTT
TAACTGTTTTGTTTTGATGCATTGATGATTTGTCGATTCTATTGATATTT
CTGATTAAGAGCATTGTTGTACTTCATGCTATTAGTAGCATTTAGCGTTC
TGACAAGTTATTAGCAATTGTATATTATAAAATGAATAAGTTAATAGTAA
TGTAGATTTATATCAGTTGATGCTGTGGATGGTTTGGCGTTGATCTTATC
ATGGATTTCATTACATTTAACATTTTTGATGGCTGCAGGACGAAATTGAA
GCTCCGATGTGGATAGATCTCAAATATGAAGCTATGGGGACTTTACATGA
AAAGTTAGTGTCTATACCATCAATGACAAGTCTGTGTTAGACTCCATTAT
TTTGTAGTCAATTATTGAGATAATTATTTTGTTGTTTACTCTGCAGTGAT
GATGGATGGTTCCTGATGACACACCAGTACGTCTTTAAATTAATTTTTTT
GCGATAAGTTTTTCCTACTCTGTTATTTTATCTGTGGTTGTTTTTATTTC
TGTTGTACTTTCGGTAAAAGAGGTGTAACCCAATATTCAGGTTCCACCAA
TGCTCTTCACGCCAGTTAATTTCTGCGTTTTCTCATTCTGGTGAGGTCTG
CGCAAACTCTGTATCCGGTGGGCAAGAGCCTTGTTCGCCAAAGCTTCCAT
CTTCAGTCTCAAAGTCAAGAGGAAAGCATTACAAAAGTAGAGTATGGGCA
CATAGCAATCGCACATCTACAACTAAGCAGCATCCAGTGAAGAACATAAG
CAATAAATTGTCAGGTGTCACATTAAAAGATGTGAAGAAAGTTGAACCTC
GACTAGAACTCGATTTGGTAACGAAACGTGGTCTCTTGCCAACAGGTGAA
GATTGTGAAAACAATATAAGTGAAACTGCTGGATCAAGTACATCTAAATT
GACTATGAGTGATCATCGCACAGAAACGTTTTTAGGTGCTACAGTTTCTA
GGGAAGGTGAAAAGAATTCAATAAGCACCGTTACATCTGAAAGCTCCAAG
CAGAATGACAAATCGCTTGAGGTAGCTAAACAAATTAGTGGCCAACCAAG
TAAGCTCTTGTTGTCTCTGCGGACTAGTCTTAGAAAAAGCTGTGCTACAA
GGCCGGCGACAGGGACGGATATTAACAGAGTGAGGAAGTCTGTAGGCACT
AGATCATCCTCAAGTAAATCTAGTGTAGGTTCCTCTACAAACCCTGGTCA
TGATGTTAATAACATGACAGCTAGAGGGATACTGTGTAATGACAAGACTC
CAGAGAGTAGAAATGCTATGGGAATCTACCAAGCTCAAAAGAACATGTTG
AAAGTTCCCAACCTATCAAAAGCCTCTTCAGTTATTCAGGAAAAAAGTTC
CGGTTCTGGACGGAAGGTTGAAGCTGCTGGTCAGAAGTCCATCAACCAAG
AAACTTCGAATGCACAGGTGAGAAGCTACAAACTCAGAACTCGTTATTTA
GCTAAATGAAGCGTGTGATAATTCTCTTAACATCATAAACTTTTTTAATC
GGTCCTAATTATGGTTAAAACTATACTTATGCAAAAAAAAATGTATCTAT
CGAAGTGAAGCAGCATTATAAGCCCTTACGAACTTTTTCTCATCATCATC
TTTCATTTGCTTCTCAACAAGTATAGTTTAGTTAAATAAATGAAATCTTG
GTTTCTAAACCATTCTTATATGGTGCAGGTTCAAAGTCGTCCTGTACGTC
CGAAAGTTTTATTGCCCCAAAGGACGCATGGATCAGAATCTAGTAGGTTG
ATTGCTTCAAAACCCAAGGGTAAAGTTCAAGTCAGTGAGCAACGTAAGAA
AGTTCTTGGTTCTGGTAAAGAAAACATGGTAGAAACGATGACAAAAAGCA
AAAATTTGTTGGCAAGAGGGAAGGTAGCTGAAGTCAACGCACAGGTTCAA
AAAGCAACGAAGGAAAGAATTCCAGCAAAGAAAGATGTTGGGAAACAGGT
TTGTGTGAAGGTACTTTTTATATGTTATTATCGACTGATTGACCATCTTA
ATATCAACTTTTAGTCTGTCTAAATGCCTTGAGCCACAAAGTTTCTGACA
CTTTTGCTTAATATATCTTCATTTTGATGTTACTTTGGAAAATCTAAAAT
AGAAAAGCTGACTTTGGTTCTATGGGAAGCATCATGTTATATGGAATAAA
TATTTTTTCTTACCTTTTTGATTCAAGGAGGTATACACTTGATCTAAAGA
ACCTATTCAGAAATTGTCTTTTAATACAAAACATCTAGCTTACAGTAGCA
AGATTCATGTTAATAGTAGCCATTCTATGCATGCTGGTTTAGCTTAGGGA
CAATCAAATCAAGTTATTCAGTGCTGTGACTTATTCATGTAAGAATGGAG
CTTTCAACTTATTATTTTGATTTTAGTCTATGTTCCTTTTCTATTTTGAG
GGAATTTGAATGCTGTTCTATTGGGAAAATATACATTCTATGACATTTGG
ATCCTTCATCTGATTTTTGTTTTTGATGGGGTTGCCTGCAGAAGAATGTC
ACTAGTCGAAATGGTCAAGAAACATCCGGAGGCTTGGTTCAGAAGCTTTA
CTTGCGGTAGGAATGATGCGTTCCCCATTTTGTAAATAGAGCAAACTTCA
TGTCGGCTTTTCCCTTTATCCTGGATGGAGTAACAAATATTCACCACTCT
ACTCTACACAGACTTCTGTGGTTCAAATGTATAATGCATACAAATTATGC
TACTATTGTAAGTCTTTTTGCTTCCTAGTTATGGAGTCAGGGGCATCCAC
CCTTTTGGAGAAGGGTACTAAAGTACATGAATTTGTTAGTTCCTTGGTAT
AATCTTCCGACTTCTGTGCA