| NCBI Gene |  |
|---|
| Relationships |
|---|
| The mRNA, XM_017375078.1, is a part of gene, LOC108205218. |
| The genetic_marker, MK005188 K2632, is located in gene, LOC108205218. |
| The genetic_marker, MK016949 1_50899005, is located in gene, LOC108205218. |
| 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_017375078.1 | XM_017375078.1 | mRNA | DCARv2_Chr1:50896818..50903408 |
TCTTTCCTTTTGGTGTTCTCTGAGAGAGAGAGGGGGGAGAGCGAGAGAGA
GAAGAGGGCGGCCTCCTCGGAGGAGAAAATTAAGAAAACCCCATGTCAAG
ATTTCACAAATCCGATGATCTAAAATTACAAATAATCACTGTTTAGACAG
AGAGGTACAAACAAAAGAAACTGAGATATGTGTATATATGTGTGTGTCTT
TATATACATCTTGTTTTCTTTGTTTGATCTCCTCGTTTGCAATGTATACT
TAATGTCTGAGGTCTTGTGATAGAATTTTGTAATTTTGATTTTCTTGATT
AAAGTTTTGATTTTTACCCAATTCACTCAAACCCCTTTGAGGCTATCACA
AGTGTTCAATCAGTTCATTACAGCTGTTTGATTTCTGGGTTTTTTCGTTT
TTCTTATTAAATTATTTTTATCATCTGTTGGATTGAAAAATCGAGTTCTT
TCTTGAAGTTTTTTTTTTTTTTTTTTGGCTAAATGGGAAGATTGTGTATC
TAATGAACCTTGTCTTTGATTCTTGAATTGCTAGGGTTTTGATGATCAGA
ACACTAGACATAGAGATGAATTGTGGGCATTGGTTTATTTGTGTGTTGTA
TAACTGTATAAGCCCATGGAGTCTGTTCAATCTGGTGTGATTAGTTCTTG
GGATATATATATAGTGAGGATGCAGTATGGTACTATGAGTCTATGATTGA
GTTGTTCATCGATTTTGTTTGAACATTGCACGATGATAGATTAGGGTTTA
GGTTTTAGGATTCTTAAGCTGGTTGAACATAACTTTTTTGCATTTCAATG
CGATAGTTTACCTATGCTGTATCACATATATATTCAGGGAATAGTCCTGA
TGATGATTTTTGATGATGGACAGGTTCTGTCACCGTATTGGTCAAGTACG
GTTTGCAGGGGATCACTTTTGGGTAGGCGTCTTCAATTGCCAACAGATCT
TTTGGACTTGTGTGTTCAGGTTGAACTTGTGTTGGGGCAGTTTGTTTAAC
TTTTTCCTTTGAAGCATTAGAAGAATTTAGTTGATTCCATTTGAAAATCT
GGTATTTGGGTAACTTGGGACGATCGTTGAACTATTTGCAAACTGGAGAT
GAGTGAAGGACATGGTTAACACAATAGGGAGTTGTTTCTGGTCAGTTCTA
AGTTCTGAACATCGTGATCAGGAATTAAGTGAAGGTTTCATAGTAGTAGA
GTGGTTTCAGTCGGCCTGGTTTACGTGCAATGTCTCGCTGCTTTCCATTC
CCTCCTCCGGGGTATGAGAGAAAGCCTAGACCAGATGATGAGAATTTGCT
AGAGAAGGTTAGACTTAAATTTTGTATCCTTTCTAATGTCTCTGTCAAAT
TATGTTTATTTGTTCTATATCCATTTATGTTGCATATTGCAAGTAATTAG
GATCATAGCATCCCCAATCAGGTTGTAGGAGCTTCACAGTTCAGAAACAC
TTTTGGAATACAGAGATAAGGAACTGTGTGGATGATATCAATTTTATCAC
TAAACTAAAAGAATAGGTTTATGTCAGATTATATTTTTTTCTATACTTCT
AGTCTATATAGACAAGATTCAGACCAAGAAACTCTCAAAGCTAGAAAATC
AAATTTGTAAGGCGTCAGTAATCACTGTTACATCTTGGGCTTCACCATGC
ATTTATGCCCCCCTAGGCCCCTATCATGTAATACTCACTAGCAAGATGTA
GAGAACATGCCGACATCATATTAGGATGTCCAGGTGTCAATTTTCAGTTT
TGTCAAGTTAAAGAACGTACTTTGTAATAATCATAGAATATTTGGAACTT
AGCAGATGGAGATCTTCAATCATCTATATTCGATTATTCGGCTTTCTCAT
GTACCATATACGACAAATTGATGTGCATTTAATAGAGATACACAAACCGA
CATCTTGTTACAGGATTTTGACGCATTTAGCGCTTATGCGTTATAAATTT
ATTGATCATTTCTGACGTGTATTTGCTGTTACACCATTCTAATATCAGGC
ATTAGTCTTAACTTGTTGATTTAGGCTGAAGATCTTAGGGAGCTTTATTT
GTTGATTTATTAAAATATTAATAAATGTTTACATGCTTATAAAATTTCCT
GCAACACATGGCACCATCTGATTACTCTTTTAAATGCTACATTGACCAGA
AATGGTACCTGCTCTCGGCTTTAACCTAAATAACCAAGTTGGTCTGCTGA
TATGGTGGGTGTTGGGGATGTTTTTCTATAATGTATGTGGTTAATTCAAA
ATTAGGGTTGGTTAATATCCTTATATAAGTTTGCTTTCCCCGTTTGCTTC
GCTCTTTTCTATTTTTGTAAAATTACTCTTGAGATGTAGTGGCCCTACAT
GCCCATCGTGTACTTAGTTCAAGCTGCTCCTCTCGACTCAGATATATCCT
CTTCTACACTTTTGGTTGCCTAGTTAGTAGTTTCATTTAGTTTGATGAAG
TCGTCTTGTTTGTTGAACACAGTACAACTGTCAACCTATCTTGTAATAAG
ATACATATACACTGACATGAAGCGCCTAGTTCAGCTGCTCAGCTTACAAA
CTCATTAATTCACAAGAAATCCACAGCAATTAATACTGGTTTGCTACTAT
TGTATGCTGGAAATATATGGTAGTACGGCTGCCATTAGATTACAGTTGGA
TCCATTGATCTTTAAGGGTCTCTTTATCTATGTTACTCGGACTCGGCTAG
AAGTATCCGACATGGATACATGTCCATGGGTCGGACTCAGTAATATTATA
AAAAATTTACATGTTTTTGGTCTAAAATAAGCGTCATAGTCCAAGTGTCG
AGTGTCCAACACGGATACTTCGAGGCAAAATGAAGAGTCTGAGTAACATT
GCTTTTTATATATTTGACTGGTTTGAGGAGTTATTTCTACCAGTTCTCTT
TGATTTTATATAAAATAGCATCTTGTATATCAGTGCTGTATTGTCTGTCA
TTCCATTGTACAGATGGGTCGCACTTTAACAAATAATGGCCCTCTGCACT
AAATTGTGTTTTCTATTTTATCCTGAAATGAACGCGCAGTTCTCGTAGCT
TTATTTAAATTTAAATGTTTATGTGAAAGTCTTCTCCTTTGTACACCTGA
CTCAAAATCAAATATTCAAAATGGCCTTGTCGAACTGTCTTCTGCTGTTA
AATAGGTAACATGGAGATTGTTACAGTTTATAAGATATATGAAGCTTCGT
AACATACAAGTGTATTGGTGTATCATCACTTTATGTCTGGCTGCCTTTAT
TAGCTCCTATAGGCCTTCTACCACTTTATAAGATATATGAAGCTTCGTAA
CATACAAGTTTTTCAACATGTGATATGTCATTGTTGGACCCTGATTGTCT
ATGTAATGTGTAAGCCTAATTGACATAAACACTGAAAACTGATGTTCTTG
CATTTTCATCGGAAATGAATAGATGTTTTTGCTCCGAAAAGTCTCAGAGA
TGTTATGCTGGACGTAAGCAGATTGCCTATAGCAAATATAAAAGTTGATT
TATAAAGCTTAACACTTGTCTAAATAGAGAGCTCGACTGTTTTATCACTT
TATAGTTGATTGTTAATGTTACTATGATGGTGGCATTATTTTCGTCTCAT
TATGTAATATTTTCATTTTTTGTCTGAAATATAATTTCAGGAAAAGCGGA
AGGAGAGAAAGCATAAGAAGGAAAAGAAAGATAAGAACAAGAAAGATAGG
AAGGAAAAGAAAGACAAAGAGGGTAAGCAAAAGAAGGAGAAGGAGAATAG
TGAAGACAAGCATAGGGAAAGGAAAGACAGAAAGGAAAGGCACAAACACA
AGAAAGATAAGAAAAAGGAAAAAGAAAAGAAGAGGGCTTCTGAAGATAAA
ATTTCTACAGGGCCACCAGAATGTAGCACCGTCGACAATCCTGGTTCTGG
CTGCACACAAAGTGATGAGACTAGTGACATTAAATTTTTGGTGGAACTGG
GTAAGAGAACTAGAGATGATGAAAAAGCTACAGAGAATCTTATGGTTAAG
AAAATTAATCTCACTGGTAAAATTTGTTCTGAATATCCGGAAAAGATGCG
TGTGGGCAAGAATGGGAATTCTGATGGTAATGCAATGCTCACAGAGAAAA
GAACAAATGATACGCAATATCATGGGCAAAGTAACAACAATGATGCGAGA
TGTACTGAAAATGGTATTGTTCAAAAAATTGTTTTGGGTCAGCAAAGAAA
GGTTGAGGGAGTGGCTGGATTGGTTGGCAACAATGTTGAGAAGAGAATGG
TACACAACAAGATTGATGAGCATATAGGTTCTAAAAGTAGAGGAGGTAGA
AGTAATGAAAAAGATCGTGATGGAAAAATAAAGTCGGGCGCAGCAAGGAA
TAGTGAGAAGGAACCAAACAAGGAGCAGTTGCTAGTAGCTAGAGAAAAGA
GTGGACAGGCAGCCTGCAATAATAGTAATACTGGAATATCACCTCTTCCA
AACGAGGGCAACAAGAATTTCAACCTCGGAAAGAGGAAGGAACTGAGAAT
AAATAAATTTCTGCATGGTGAGTAATTTTATTGACACAGCTTTGTTTTGA
GTACAAACAAGATGACTTAATTGATATTTATATCTTTATGATATATTAGC
ATGCTATTGAATAGAACTTTATTATGACTTCACTGTATGTTCCCTGTGGC
CATGTCGCGCCATTTAACTATAATTGTAAACTTTGTAGAATGCCTTTCTT
CTTTTTTTATTAAAGTTTAAATAGCATTCTTGGAGCTCTTTACGCCGACT
AAAACATACGGGGATTAGAGAAGTAGTTTTTGAAATTGGATTTAGATTTA
AATTTTCCTGCCTGTGTTTTATATGTGGCTCTTTCTTCTATCTTTGTTTC
AGATGATGAGATTCGGCCTTCTAAGTTGCAAAGACCTCTCTCTTGTGCCA
AAGAAGCTGTAGAAGATGGAAATTATTTGAAACTTTCAAAGGCCTTAACC
AAATCAGTGCCAGAGTTGGCAGGGATGGTCAATAACCATAAATTGAATAG
TAAGCAACCATCCTCCCACCGGACAACAGAGGATAGATCTAAATCTAAGG
CAACCTCTTCTGCTATCCAGTTTGCCTCTCTGGGGCAACAGACAGGTGAT
AATCACAAGGTGGATAATAGTCTTGCATCCTCTCATTACACTTTGGAAAA
TGGAAGGACATTAGAAACATTAAAAGCTGCTTCCCTGTCTGCCTCTGAAT
GCTTCAGAAGTAGCATTAACCACAAAGTGGATGATAAAGTGGGGTCGGCT
CGTCCAGTCCTTGAAAATGGAGTAGTTCACAAAGCTGCTACCCTCACAGC
ACTAAAAGAACATGAGGCGATTGGTCACTCAAAGGTTGATAATAAAGTGA
ATAATAATGTTCCATTGTCTCATTCTACTTCAATCAATGGAAGGATATTA
GAAACATCAAAAGCTGGTTCCCTGCCAGCTTCTGAATGCTACAGAAGTAG
CATTAAGCCCAAGGTGGATGCCAAAGTAGGTGTGGCTCATCCAGTCCTGG
AAAATGGAGTAGTTCACGGAGCTGCTACCCCCACAGCAGTTGGAGGACAT
GAGTCAATTGATCATTCAAGGTTTGATAGCAAGGAACACAAACCTAATGG
CTTGGTAAAGGATAAAAGGGCAAATGGTTCCTCAACAAGGCCATCATCTT
CTACAGCTAAGCAGATTGTTGGAGAATATCCAAAACCTCCCCATCCTGAT
TCCAAGTATCTGAGTAAGATACTTGCTATTCCCAGTATTGAGTGGTCAGG
TTTCGAAGAACAAGAATGGCTTTTGGGCAGCAATAGTGAAAGTACCAAAG
AAAATCCCAGTTCTTCTCAGTTGAAGGAGTCAAAGCAGGTGTGGGACAAA
GCTCTTCAGTTAGAATCTGCTGATATCACTGCCCTGCCCTATGTCATTCC
GTACTAGTTGATATTACTTCTCCTTCTGTTCATTTTCTGGAAGTTACGAA
GAGTAGGCCAAGGAAAAACAAAACATTCATCTGGGCATTTCCTTTACATT
GTTATACCAGGATCATCATTTCTTCGATGTTACAAAAATAGCTTGCGTGT
ATCTTGTGTAAACCCTTCTTATTCTTCCTGGTGGAATCGTGACATATGGA
CACTGGATATCTACATGCTACTCGACAAAGGCTTGTTCCATCAATTCCCA
CATTTGTGCTGGGACTTCAGTTAGTGAAGTGTTTTCAAATGTAGATTTGT
TGTCCTTGTGGAGTTCTGAGGGTGGAGTAAAACATGGAGAGCAGTAACTA
GACCAAAGAATCATCTGTCGACTGGCACCAGTCAGGATTAGGAAACTTGA
TGAATGCTGCAAACCGCAAGGTCTCAAGTGATCTAGAAATTATCATCTTT
GTAACGGGTTAGTATATAGTGTTGTACGTGGAGGAGATGGTCTCTACCGC
ACCATGATCTTCCATTTTTGAGGGGTAAGTTATAGATGTAATGTGCATGG
AATGTGCAATAGAATTATAGAAGAGAATAGAAAAGAGGCAGCCTTGTTTT
AGCAAACACACCTCTCCTCTCCATCTGGGAATCAGGAATTTGAAATTTTA
TAATGTGGAGAAAAATATTACAAGTTATATCTCAACTTAA