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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

TkA01G007540
Reference: TK1151 Chr: Chr01 Coordinates: 1961270-1965199 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2721 bp · TkA01G007540|TK1151|cDNA

GAAAGAAGTATTGGGAATCCTAAACTCACAAAGAGGCACAGAGAGAGACACGTTCTTCTGAAGAGCAGAAAAAAAGAGAATAAACAAAAAAAGAAAAACGATCAGATTTTCTCTTACTACCATCATCGATGCAGCATCGTTTGCCGTACCTTTGATTTGCTGAAATCGAGAGCTGATTGATTTTCGCTGGTTACGATTCCTAGAGCATCTGGAGATTCTTCTGCTGTACAGCTACAAACAATGGCTTCGATTAGTAGTTC...

CDS

Download CDS FASTA

2382 bp · TkA01G007540|TK1151|CDS

ATGGCTTCGATTAGTAGTTCCTGTCATACATCATCTGTTACAACAGTCCAAGAAAACGGAAGCAGAAACAAGAGGAAATTCAGAGCTGATCCACCACCTCCAACCACTTCACAGAATCTAATTTCACCATTACAGCACGAATGCTTGAGCTATGAGTTCTCCGCTGAAAAATTTGAGAGTACTCCTGCACACTCCAATGGATGTGACATGTGTAGCTTCAACCATGAACAAGTGGAATCATTCAAACTTGACCTAGGGCT...

Protein

Download Protein FASTA

793 aa · TkA01G007540|TK1151|PROTEIN

MASISSSCHTSSVTTVQENGSRNKRKFRADPPPPTTSQNLISPLQHECLSYEFSAEKFESTPAHSNGCDMCSFNHEQVESFKLDLGLACAAGGLGSGSTNRNTLILEAIGEFHDADWSDLTESELEELVLSNLDAMFKSAIKKIASFGYTEEVATKAVLRAGLCCGCKDTLSNIVENTLIYLRNKQEVDPLTQQHHFESLQQMEKYTLAELVCVVREVRPLFSTGDAMWCLLISDMNVSQACAIDGDGTSDVCSSKQGKP...

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.

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ID Mapping

Input IDTkA01G007540
TK1151 IDTkA01G007540
OH-1004 IDLXL04_005914
Relationship / confidenceMulti Source To Oh1004 / Complex relationship
Protein identity (%)99.900
Protein coverage (%)TK1151 100.000 / OH-1004 100.000
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 IDTkA01G007540
LocationChr01:1961270-1965199 (-)
DescriptionSimilar to RF298: Putative E3 ubiquitin-protein ligase RF298
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At4g03000 Putative E3 ubiquitin-protein ligase RF298. No verified direct reference in this release
At1g03365 Putative E3 ubiquitin-protein ligase RF4. No verified direct reference in this release
At1g32530 MND1-interacting protein 1. No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_005914 · 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:0016567 protein ubiquitination Biological Process
GO:0005634 nucleus Cellular Component
GO:0005737 cytoplasm Cellular Component
GO:0008270 zinc ion binding Molecular Function
GO:0061630 ubiquitin protein ligase activity Molecular Function
KEGG gene cross-reference
ath:AT1G03365
ath:AT1G32530
ath:AT4G03000
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.

Nucleus0.514
Rank 1 · TkA01G007540 · TK1151
Cytoplasm0.454
Rank 2 · TkA01G007540 · TK1151
Cell membrane0.111
Rank 3 · TkA01G007540 · TK1151
Endoplasmic reticulum0.049
Rank 4 · TkA01G007540 · TK1151
Plastid0.039
Rank 5 · TkA01G007540 · 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.

PF14569zf-UDP42-54 aa
PF13920zf-C3HC4_364-74 aa
PF14447Prok-RING_464-72 aa
PF20235PIR2-like_helical132-244 aa
PF13920zf-C3HC4_3162-175 aa
PF13920zf-C3HC4_3284-292 aa
PF13639zf-RING_2286-292 aa
PF07926TPR_MLP1_2466-546 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA01G007540PF14569zf-UDP42540.4611.3
TkA01G007540PF13920zf-C3HC4_364748.7e-1142.2
TkA01G007540PF14447Prok-RING_464720.003617.9
TkA01G007540PF20235PIR2-like_helical1322442.5e-2796.1
TkA01G007540PF13920zf-C3HC4_31621758.7e-1142.2
TkA01G007540PF13920zf-C3HC4_32842928.7e-1142.2
TkA01G007540PF13639zf-RING_22862920.003718.2
TkA01G007540PF07926TPR_MLP1_24665460.1313.0
TkA01G007540PF30907IPGA1_CC4855310.01416.5
TkA01G007540PF31269Cubilin_N5025382.98.7
TkA01G007540PF07926TPR_MLP1_25275840.1313.0
TkA01G007540PF20235PIR2-like_helical5315472.5e-2796.1
TkA01G007540PF30907IPGA1_CC5335830.01416.5
TkA01G007540PF07926TPR_MLP1_25466490.1313.0
TkA01G007540PF30907IPGA1_CC6046480.01416.5
TkA01G007540PF07926TPR_MLP1_26667040.1313.0

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
Q0WPJ7Arabidopsis thalianasp|Q0WPJ7|RF298_ARATH Putative E3 ubiquitin-protein ligase RF29834.800%Swiss-ProtMedium
Q9ZVT8Arabidopsis thalianasp|Q9ZVT8|RF4_ARATH Putative E3 ubiquitin-protein ligase RF433.000%Swiss-ProtMedium
Q8RX22Arabidopsis thalianasp|Q8RX22|MIP1_ARATH MND1-interacting protein 127.900%Swiss-ProtLow

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