| NCBI Gene |  |
|---|
| Relationships |
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| The mRNA, XM_017364786.1, is a part of gene, LOC108197226. |
| The genetic_marker, MK010974 8_21963903, is located in gene, LOC108197226. |
| The genetic_marker, MK007909 TP44280, is located in gene, LOC108197226. |
| The genetic_marker, MK008512 8_21969735, is located in gene, LOC108197226. |
| The mRNA, XM_017364787.1, is a part of gene, LOC108197226. |
| 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_017364786.1 | XM_017364786.1 | mRNA | DCARv2_Chr8:21963438..21970685 |
| XM_017364787.1 | XM_017364787.1 | mRNA | DCARv2_Chr8:21963438..21970685 |
TTTTAAAAGTCCAGAAACACAAATAGAAATGAAAGTTATATAATTTTACT
TCCGTTTTATAACTCGGGAGAGCAGGACGTCCGTTTCACTTGTTTTCCAC
CCTTTTTATAACTCGGGAGCAGGGCGTCGGTGATGCTGGTGGACTCAGGT
CTAGCCGTCTAGCCGTATACAACACGGTGGCTAGTACATAGTACTCCTTT
TTTTGTTTGTTTCCATACTACATTGACTCTCAGTCTACCATGCCTGTCCT
TGTCTACCATACTTCCATTGACTCTCAGTCTACCACTAACAACATTGTTA
GTGTTGTACATGGTTGATTGAATTGAGCACTACATCTGCCAGGAGAATTT
TCAAACAAGCATCCACACCAGACCGCGGCACTCGAAACATCTTACAGGAT
GAGAGCAGCTGGAGTTAACAGATACTGGACTCATGTAATATCTTTGTTCC
TCATCTCCACATCTGCTGCTGCTGCTGCATCTGGTGGAAATGAAACGGAT
CAACTAGCATTGTTGGCCTTCAAAGCAAAGATTTCCGATGATCCTCTAGG
AGTGTTTAGCTCCTGGAATATGTCTCTCCATTTCTGCCTCTGGGAAGGTA
TTACATGCAACAAACAGCACCAAAGAGTCGTCAGCCTAAACCTCTCCTCG
ACAGGTCTGGTAGGTTCTTTGTGTCCTGATATAGGAAACATGAGTTTTCT
GCGTGAAATCGATCTTTACAACAACAGTCTTCAAGGCCCAATTCCTCAAG
AAGTAGACCGTCTTTTCAGGCTAAAAGTTCTAAGCTTAGGCCGTAATGAT
TTGGAAGGAAAGATACCAGGCACCATAGGACGTCTGAAAAGTTTATTCTT
TGTCGATATCTCTTCAAATGAACTCTCTGGTATGATCCCTACTTCAATTT
TCAATATCTCGTCATTGTCTTCCTTCAATTTGGCCAGTAATCAGCTTGAA
GGAAGTATACCATCAGACATCGGATTGACTCTTCCAAATCTGAAACTGAT
TCGGTTATCATATAACAAATTAACTGGAAGCATTCCTGCATCGCTCTCTA
ATGTTTCCAAACTTCAAGCTATTGAATTCCAGTCCAACAACTTAAGAGGC
CCTGTATCTGTGGATTTTGGAAGATTGCCGTATCTTCAATTACTACGCCT
GTCGTATAATAATCTAGGATCTGGAGAAGAGGGTAACTTGAGTTTTCTTG
ATCCACTCACCAATTGCAGCAGATTACTAATATTGGAACTAGAAAGCAAT
AATTTTCAAAGGTCATTGCCCAGTTCAATTGCTAATCTATCAACTACGCT
ACAAATCATAAGCTTAGCATATAATCAGATTTCTGGAAGCATCCCTTCCG
GGATAGGTAATTGTATCAGCTTGATTCTTTTATCTTTACAAGGCAACAAG
CTCACGGGCATTATTCCCTCTGAAATTGCTAGGCTCGGGAAATTGCAACG
AGTTATTCTTTCTAACAACATGCTTTCAGGGAGCATTCCTGCATCCATTG
GGAACTTATCTTTGCTGGACGAGATTCATTTAGAAGATAATCAATTACAG
GGAACAATTCCGGCTGGTTTTGGAAACTGTCCAATGTTGGTTTTCTTGGA
TTTGTCTCGAAATAACCTCAGTGGAACTATACCTCGTAACTTATTTTCTA
TTTCCCCATTTTCTGTGAAACTAAATCTTTCTCGAAATCATTTAGTTGGA
TCACTACCAGCAGCTATTGGAGCTTTGGGAACTGTAGTTGAATTGGATGT
CTCAGAAAATGAGTTTTCTGGTTTTATTCCAGTAGAGCTTGGTCGATGCA
TCTCCCTCAGTTCACTATACATGCAAGGGAACTTTATTCAAGGTTACATC
CCTGAATCATTGACAAATTTACGAGGTCTGCAATATATTGATTTTTCTCG
TAACAAATTATCTGAGAATATCCCCGATTTCTTTGGAGACCTAATCTACG
TGGAATATTTGAATCTGAGCTGCAATAATCTCGCAGGAAAGGTGCCAATG
ATAGGGGTATTTTCAAATGCAAGTGCATTTTCAATAGTAGGTAACAAAAA
GCTATGTGGAGGGATACCAGAACTGCGGCTCAAAAAATGCAGTAAAAAAT
ATATTGGAACATATAACCAAATTATGGCTTGGGGACAGGTTTTCATCTTG
ATAGGCTCTATACAAGATCTTCTTATCATCAGTTGCGTATTTATGTCATG
GCATAGAAGGAAAAGAAGGGAACAACTGAGATACTCAGCATCAAATGTAA
TGATATCCCCCAACAAAATGTCATATGAGCTACTCCGTCAAGCAACCAAG
GGATTTTCACGAACCAACTTAGTCAGCGAGAGTGGTTTTGGGTTAGTGTA
TAAAGGAAAACTTGATCTTAAATACATTGGGATACCTGAGGGGGAGAAAG
CAGCTATAGCAGTAAAGATATTTAACACTTTGAATGAAGAAGCGGCCAAC
TGTTTCATCACTGAGTGTGAAACCCTGAAAAATATTCGCCACAGAAATAT
TGTTAGAATCATAAGTACATGTGAGAACCACAAATTTAAAGCTATTGTTT
ACGACTTCATGAAGAATGGGAGTTTAGAAGGGTGGCTGCATTCAACAAGT
AAAGCATCTCATGATAAGCTCAACATGCCTCAAATACTGAACCTTGATAC
CAAAATAAACATAGCGATTGATGTGGCTAGTGCACTTGATTATCTACATA
CTCAATTGGCCAATCCCTTAATACATTGTAATCTGAAGCCAAGCAATATT
TTGCTAGATAGAAACATGACTGCACATGTATCAAATTTTGGACTAGCGAA
GTTTAATACTGAGTTCAGCCTTACAAGCCAAAGCATTTTAACTGGATTTG
AAGGAAACAGTGGATATGTACCTCCAGGTAATAAACTACACACACACACA
CCCTACTTCATACATAAAATTTTGTATTGTTTGGTATTTTCTTGGCCAAA
GCATGTAAGATCTAGACAGAGCCCATCCCTAAGCTAGGATAGAACATGTA
ACTTGTAGACCTGTCTAACAATTAACATGTATAATAGCCTAAAATTCTTT
GCACTTATATTCTGTAGTAAAAACATGAAATTTACTTCCTTTTTTTTTTT
TGCTAAATATGAAATTTACTTCCTAGTTATTCAATATAGTATGTAAACCT
CTTCACTGCCACAGATATCACAGTCACGTCCTGTGATACCTACAATCTCT
TGTATCATTATTTAAGTTATGATAATTAATGTAACTGCTTGTATTATTTC
CAAAGTGGTGTAATTTGTCTATAAATGTGTTTTTAGAAAGTGCCGGTAAT
TCTTAGGGACAGATACAAGAGCACCGCAATCTAGTTGAAAAAGCAATTTA
GGCAACGAAGGTGCATTGCGTACAGAATTAGTGATCTCTAGAGAAAGTAC
TTCTCGTATTATACAATCATATACTTGCAGATAAATTCTAACTTGGTATA
ATCCTCTAATATGTTGTGCAAGAGTATGGTCTGGGAAGCATGGTGTCAAC
TAAGGGGGATGTCTACAGCTATGGAATAATTTTACTGGAGATGCTGACAG
GAAAAAAGATAACTGACCCTATGTTTCAAAATGGTTTTAAGCTTCAGAAC
TTTGTTTCCAATGCCTTGTCTGATGGTATAAAGGGAATTGTCAACCCAGT
CAATCTATTTGAACTTACAAGAGAGAATGCAGCAGAGGCGGAGGATTGTC
TAAGTATACTTTTCAACATTGGTCTGAAATGTGCGCTGGACTTGCCACAG
TTTCGACCAGACATCAGTGATATCTTAAGCATGTTGGAAACAGTTAGGAT
CATCTTCAAGGTTACTCAACTATGATCTTAATCTTTCAAATAATCTTGGA
TTTCTTAGCATTAGATCAGATTGATTAGTTACCCGTATGTAAATCACTGG
CATACAACTTTGAGGTTGCTTAACTGCATATCACCTCATCTTTCATAAAC
TCTGTCCACTATTCTATTCATAGTCTTCCTTCTCTAGAAATCAAGATTAA
ATCCTTTGCTTCAGGCCAATACAGGTAGTCCGGAGGCCTATGCTAACAAA
ACTTCCCAAGCTGCAGTTTTGATGGCTCAAAGAAACATGAAATCTCTATT
ATTGTACGGGTACAATTCTCCATAATTCCCAATTGCCCATGATATATATA
TATATATATATATATATATATATATATATACTCAACAGTCAATATGAAAT
TTCTTGTAAATACTAATGTCTATTCTTTTTTGAATCGTAGTTAAACATAA
AAGAATAGAAGTTATAGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNTTTGACAAGAATTATAGAACATATTTATAATTATTGAAT
GTAAAGGGATATATTATTAAAGTGACCTATTAAATTGGGATATATTACAC
AAATTTCCAAATAATATATATGATATATGACATACATATTCTTATATATA
TATATATATATATATATTGGTCATGCCTTGAACTTTTACAAATGGTGTAG
GGACAAAAAGATGCCTCCAGATTCAAGATCAATGTCGATATCACCATCGG
TCACACTGTCATTCATGGATATCCATAAAGCAACTAATGGACTGTCATCA
ACCAACTTACTAGGCGCAGGTGGTTTTGGCTCTGTTTATAAAGCAACATT
TCATCAAGAGAATGTTCGTCTTCTCTTAAGGAATAGTGGGATAGAAGATA
GGATTGGAACAGCTGTTGCAATTAAAGTATTTAACCTTCAGCGTAGAGGT
GCAGCAAGAAGTTTCAAGACCGAGTATAAAATCTTAAGAAACATTAGCCA
CATGAATCTTGTAAAGGTTATAACTGCATGTACAAGTAAAGATCTGGAGG
GTAACGATTTTCAAGCTATTCTTTATGAGTTCATGGATAATGGGAGTTTA
GAAATGTGGCTGCATCCAACAAATAAAACATACCATGATGGAGCCATCAG
ACCTCGAATACTCAGCCTACATGCCAGAATAAATTTAGTGATTGGGATAG
CCTGTGCACTCAGTTATCTTCATTATCAATGTAAGAATTGCATAATTCAT
TGTGACCTAAAACCAAGCAACATTTTGTTAGACAAAAACATGGTCGCGCG
TATTGCAGATTTTGGGCTGGCAATTTCTCTTCCTGAATCCCCAACTCTGA
ACCAAGGTAGCCAGTCCAGTGGATTACGAGGAACCACTGGATATATAGCT
CCAGGTATATTTTCCATAAAACTTGGCATTTAATTAGAGAAACATGAATT
CTTTAAAGGCTTAATGTAAGACTTGGTTCATTTTAGTTTTGCACAGAATG
ATCTCACCGTGATTCTTTCTTAATAATATTAAATTGGAATAAGAGAGAAC
CAGAAAGCAGAAGAATTAATTGTCCATGACTACAACCTTTCAGTCCTTCC
CTCTCCTAGACGCCTTTAGAGAAAGTGCCAGAGTACCCTAGGTAGTATAT
TAATCTTTAATTAACTCCAGAACTGCCATAATTAAAGTTTAAATTTATTG
AACACCATGATTGCTCCTTCCTCACTGCCTCCATCACTACACCTGTTTCA
TCCTCAGCTAAATTGCTCAAAGTTGAGACCTCCCGGTATGCTTAACTCTC
GTACCATTTTTAATGACCAACCTTGTGTTGTTTAATTGCCAAAAATTAAG
TACTGACGTACACATTTTATTTATCTCCAGAAGTCTCTAGTTGGTGTACG
TAGTGTTCATTTTGCTTTACTTGGACTAGGTAAAAAATGAAAAAGCTATT
AATCACAACAATAGGGTTCCTCGGATTTGTCAGGTCTCATATGACTAACT
TATTGCAGTCTATTTCTAATCAAACCAGAGGAAATAACAGACGAACTCGT
TTGGATTTGTTTAATTAATATGATATGTGTTCAATAGTGGGGGCACTTGA
GAGTTTATTACTTAAGCTCAAGTTCCAGTATTGTCCATGTAAGTCTGCCC
CTGCATACATCCACCCCTCCTTTTCCCCAATATATACCCTGATGTATTGA
AATTGGTTTTAAATTAATGTAGGAATCGTACCTGGCTGATTAATTTTGAT
GACAGCTTAGATGTAAATATACTGGTAAATATAATATAAACTGGTTTATA
CCATGTTTGGTAATTGGATTTCATTTGAAATTATGGATTTGACCCAATTA
CATGTTTGGATAGACAAAAGAATTTGAATGTGTGAAAACCAAGACAGTCA
AATACTCGTATGAACTTGATGATTTTAAATGACAACTCAAATCATGTCAT
TTGGAATCTAGCATTTAAAATGAATTACATGTTCACAAACACAATCTAAT
AAAAATTTAATGGCTGTATCATATGCATATTTGTTAAGGTAGTGGGACTA
TTAAGAATCAGGATTGAGGGGTGAGAGTCATTCCATGACTCAGGGGTGCT
CTTACCTCTTAAGGCTTCCATTTTTCTTTGAGAAATTTTACAGTAAATTG
CAATTTATGGCTAAAACTTTCATTGTATATTTTCTCGGTTTTAGAGTATG
GACTAGGATGCAAAATGACAACCAAGGGCGACACATACAGTTTTGGGATT
TTGTTATTGGAGATTTTGACAAGGAGGAAGCCTACTCATCGTATGTTTCG
TGGAGGTCTTAACCTTCACAACTTTGTTTGGATGGCTATGCCTGACAATG
TGATGGACATTATTGACCCGCTTATGATGGTAACGGCATCTGCAAATGAA
GGGAATGAGAAACAAGTAGAGGAATGCCTGACTAGATTGTTCAGTATTGG
TTTAGCATGCTCTAAGCCATCGCCGAAGGATCGGCCAAGCATGCTTTCCA
TACTACATGAGCTGGAGTCTATTAGGAACAGCTTCTACATTAATTAGTAT
GTGTTGCCTCACTTTTTAAACTAATTACATGAACTTTACTACCTTAATAC
TGATTTGTACTATGCATGATAATATCACTAAAGATCACTTGCATATTTTA
TGGACGTTGAAAGAATTATTTCTTTATTTATTGATGTATGTTATTTTTTT
TTTCTAAGAAATAGGTTAATTTCCTGTAAAAGAAACATACTGTAGTT