RubberDandelionOmics Rubber Dandelion Multi-omics Website
More
Transcriptome Expression Annotation Rubber Pathway TF Prediction Targets Protein Network Resequencing Tools Downloads
ZH EN

How to use this page

Gene Card

Enter a TK1151 or OH-1004 gene ID to view sequences, annotations and analyses in the corresponding reference genome.
Flanking length, max 10000 bp
Examples TkA01G624900 LXL04_000258

Gene overview

TkAUNG087920
Reference: TK1151 Chr: ChrUn Coordinates: 24967542-24970664 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2122 bp · TkAUNG087920|TK1151|cDNA

GTGTAATATACTCTTACGCCTAGTGTTAAAATAAAGAAGCGCGGGAAGGTTTCAGTGGAGAAAGGAATGGCGACTGAGGAGATTCTAGAGATGGAAAAAGCCAGGCTGATAAGCTTGGCTCTCGAATTTGGATTCGATGAAGAATCCGCTCGCATTTGCTTAGATCGTCTCGTTGATCTCTACGGCAATGATGGGCGGGACTTCATCTCTGTGGAGCACTGTGGCGATGACTATCTCGCATCACTTGCAGAAACTATGGA...

CDS

Download CDS FASTA

1869 bp · TkAUNG087920|TK1151|CDS

ATGGCGACTGAGGAGATTCTAGAGATGGAAAAAGCCAGGCTGATAAGCTTGGCTCTCGAATTTGGATTCGATGAAGAATCCGCTCGCATTTGCTTAGATCGTCTCGTTGATCTCTACGGCAATGATGGGCGGGACTTCATCTCTGTGGAGCACTGTGGCGATGACTATCTCGCATCACTTGCAGAAACTATGGAAGATACTGAGGAATGGGATGATTTGCAAGCTTTGGAGACTGAGGCTTGTGGAACCCTAGCAGACAT...

Protein

Download Protein FASTA

622 aa · TkAUNG087920|TK1151|PROTEIN

MATEEILEMEKARLISLALEFGFDEESARICLDRLVDLYGNDGRDFISVEHCGDDYLASLAETMEDTEEWDDLQALETEACGTLADMFDKDSIKHNETVDNDIREPFVNVSKKSSKPQQHDNLFHLDSTSEDEDPDFNISSKKKTKSTSSSSHSKSSQIPPKSTSNKKDEKMKNTQTSVLSFFGKKSPPSVSNNGGGSLSYEELKSLDDIELTNVVIFGNKAFRPLQHQACEAFVQKRDCFVLMPTGGGKSLCYQLPATM...

Flanking Sequence Download

Sequence orientation and download details

Upstream/downstream are capped at 10000 bp per side. Negative-strand genes are reverse-complemented so the final FASTA follows transcriptional 5′→3′ orientation.

Download Gene (CDS) Download Protein

ID Mapping

Input IDTkAUNG087920
TK1151 IDTkAUNG087920
OH-1004 IDLXL04_001352
Relationship / confidenceNon Reciprocal Best Hit / Complex relationship
Protein identity (%)46.700
Protein coverage (%)TK1151 66.077 / OH-1004 37.702
Coverage and evidence

Coverage is the aligned span of the best-scoring HSP divided by representative protein length. A homolog match does not establish functional validation.

Source versionTK1151 / GWHBCHF00000000
Open Full ID Mapping
SNP / Indel variants and carrier samplesCRA009020 · TK1151

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene IDTkAUNG087920
LocationChrUn:24967542-24970664 (-)
DescriptionSimilar to RECQL4A: ATP-dependent DNA helicase Q-like 4A
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At3g05740 3'-5' DNA helicase that may play a role in the repair of DNA. No verified direct reference in this release
At1g10930 DNA helicase involved in DNA repair.
Arabidopsis RecQI4A suppresses homologous recombination and modulates DNA damage responses.2005 · DOI: 10.1111/j.1365-313x.2005.02501.x
Two closely related RecQ helicases have antagonistic roles in homologous recombination and DNA repair in Arabidopsis thaliana.2007 · DOI: 10.1073/pnas.0705998104
Topoisomerase 3alpha and RMI1 suppress somatic crossovers and are essential for resolution of meiotic recombination intermediates in Arabidopsis thaliana.2008 · DOI: 10.1371/journal.pgen.1000285
The RecQ helicase AtRECQ4A is required to remove inter-chromosomal telomeric connections that arise during meiotic recombination in Arabidopsis.2011 · DOI: 10.1111/j.1365-313x.2010.04438.x
At1g60930 3'-5' DNA helicase that may play a role in the repair of DNA (By similarity).
Two closely related RecQ helicases have antagonistic roles in homologous recombination and DNA repair in Arabidopsis thaliana.2007 · DOI: 10.1073/pnas.0705998104

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_001352 · GCA_047496595.1_OSU_TarKok_2.0. These OH1004 annotations are retrieved through ID mapping; the Arabidopsis/rice table below uses protein alignments from the query reference.

GO annotations (OH1004 source)
GO:0000070 mitotic sister chromatid segregation Biological Process
GO:0000706 meiotic DNA double-strand break processing Biological Process
GO:0000722 telomere maintenance via recombination Biological Process
GO:0000723 telomere maintenance Biological Process
GO:0000724 double-strand break repair via homologous recombination Biological Process
GO:0000725 recombinational repair Biological Process
GO:0000729 DNA double-strand break processing Biological Process
GO:0000731 DNA synthesis involved in DNA repair Biological Process
GO:0000732 DNA strand displacement Biological Process
GO:0006260 DNA replication Biological Process
GO:0006265 DNA topological change Biological Process
GO:0006281 DNA repair Biological Process
KEGG gene cross-reference
ath:AT1G10930
ath:AT1G60930
dme:Dmel_CG6920
sce:YMR190C
spo:2541620
These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.
Open Annotation Module

Gene expression

View expression in different studies, tissues and treatments. Results are presented separately by study and measurement unit.

View expression for this gene
Data sources and gene correspondence

Expression data come from public transcriptome studies. Reference genomes, sample metadata and measurement units are shown with the results. Ambiguous cross-reference correspondences do not select an expression record automatically; missing values do not mean zero expression.

Subcellular Localization Top 5

Computational predictions or homology annotations below do not replace localization experiments.

Nucleus0.872
Rank 1 · TkAUNG087920 · TK1151
Cytoplasm0.184
Rank 2 · TkAUNG087920 · TK1151
Mitochondrion0.065
Rank 3 · TkAUNG087920 · TK1151
Cell membrane0.020
Rank 4 · TkAUNG087920 · TK1151
Endoplasmic reticulum0.012
Rank 5 · TkAUNG087920 · TK1151

LocPro · Direct prediction · Computational prediction, not experimental localization

Open Subcellular Module

Predicted Functional Domains

Domain results are from Pfam-A/HMMER; positions are amino-acid coordinates on the protein sequence.

PF28551UBA_RECQL11-61 aa
PF10440WIYLD20-47 aa
PF15457HopW1-155-108 aa
PF09507CDC27127-186 aa
PF04851ResIII140-149 aa
PF04851ResIII222-389 aa
PF00270DEAD224-393 aa
PF11745DUF3304246-268 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkAUNG087920PF28551UBA_RECQL11616.8e-30103.7
TkAUNG087920PF10440WIYLD20470.1912.3
TkAUNG087920PF15457HopW1-1551080.1312.0
TkAUNG087920PF09507CDC271271860.0813.1
TkAUNG087920PF04851ResIII1401493.3e-0524.6
TkAUNG087920PF04851ResIII2223893.3e-0524.6
TkAUNG087920PF00270DEAD2243935.6e-2692.0
TkAUNG087920PF11745DUF33042462680.1113.7
TkAUNG087920PF00271Helicase_C2563201.4e-2074.3
TkAUNG087920PF00271Helicase_C3734021.4e-2074.3
TkAUNG087920PF00271Helicase_C4315371.4e-2074.3
TkAUNG087920PF11745DUF33044454750.1113.7
TkAUNG087920PF15457HopW1-14474660.1312.0
TkAUNG087920PF16124RecQ_Zn_bind4484582.7e-1454.3
TkAUNG087920PF00270DEAD4564715.6e-2692.0
TkAUNG087920PF10440WIYLD5065210.1912.3

Arabidopsis / Rice Protein Homology

Only Arabidopsis and rice are shown. Swiss-Prot entries are reviewed; TrEMBL entries are supplementary sequence candidates. Similarity is not experimental validation.

Download current result

ProteinOrganismDescriptionIdentityDatabaseConfidence
Q9FT74Arabidopsis thalianasp|Q9FT74|RQL1_ARATH ATP-dependent DNA helicase Q-like 164.900%Swiss-ProtHigh
Q8L840Arabidopsis thalianasp|Q8L840|RQL4A_ARATH ATP-dependent DNA helicase Q-like 4A46.000%Swiss-ProtMedium
Q9FT70Arabidopsis thalianasp|Q9FT70|RQL4B_ARATH ATP-dependent DNA helicase Q-like 4B44.800%Swiss-ProtMedium

JBrowse

View in Genome Browser