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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

TkA04G095250
Reference: TK1151 Chr: Chr04 Coordinates: 24801758-24804046 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1880 bp · TkA04G095250|TK1151|cDNA

CAGCATCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTATATATATATAACCTACAGACAATCTGAGGTTTCAAGAACCGACGGATTGATCTCTAGGGCACAACGTAAACAACATTAAATTTTTGGCCTACCCAACTCCAAGATAAGATGCAATCATCTCCAAACTCACCCAACACACACAAGATTCCCCTCTATAAATTTGTGCAATAATCTTTTCTTTCTCGGTCTTCGTGGGCGAAAATCCAAAAAATT...

CDS

Download CDS FASTA

1314 bp · TkA04G095250|TK1151|CDS

ATGGATAGCGCATCAGCTGTTCAACATTTAGACCCACCAGGAGCATGCGCTCTATGCCACAGAATTCTTCCATTAGAGTATGACGTCATTGGACTTGAATCCATGAGCATATGCGGCGACTGTAAATTCCTATTTCTAGAAGATTCCGACACCCCATCTCACCACATCCACCAAAGAACTCCAAGACCAAGAAGAAGAACAACAACAAGATACACCAACACCAACACCAACACTTCAGAATCAATCGAAAACATCTTCTC...

Protein

Download Protein FASTA

437 aa · TkA04G095250|TK1151|PROTEIN

MDSASAVQHLDPPGACALCHRILPLEYDVIGLESMSICGDCKFLFLEDSDTPSHHIHQRTPRPRRRTTTRYTNTNTNTSESIENIFSTMINNQSSRNNNPPPPHLPLPDLDNHSIDTSSRGSRRWRRVFSDTESDGFDSVYGESDAISYGVYGGDDDDSDASIDVHSFLGDSDTDIDPMHAGFHQWTSDDEDNNNNNNNNNTLGSLIARVHLQRTLTSDNDNSVHVRISERRQRERERERRGDEIEGHSGDYLDARSFEE...

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 IDTkA04G095250
TK1151 IDTkA04G095250
OH-1004 IDLXL04_035544
Relationship / confidenceMulti Source To Oh1004 / Complex relationship
Protein identity (%)47.400
Protein coverage (%)TK1151 26.316 / OH-1004 32.676
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 IDTkA04G095250
LocationChr04:24801758-24804046 (+)
DescriptionSimilar to RING1: E3 ubiquitin-protein ligase RING1
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At3g19950 E3 ubiquitin-protein ligase which accepts ubiquitin from an E2 ubiquitin-conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates. No verified direct reference in this release
At5g64920 E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins.
The RING finger motif of photomorphogenic repressor COP1 specifically interacts with the RING-H2 motif of a novel Arabidopsis protein.1999 · DOI: 10.1074/jbc.274.39.27674
Biochemical evidence for ubiquitin ligase activity of the Arabidopsis COP1 interacting protein 8 (CIP8).2002 · DOI: 10.1046/j.1365-313x.2002.01298.x
At3g46620 E3 ubiquitin-protein ligase involved in the positive regulation of abscisic acid-dependent drought stress responses.
Suppression of Arabidopsis RING-DUF1117 E3 ubiquitin ligases, AtRDUF1 and AtRDUF2, reduces tolerance to ABA-mediated drought stress.2012 · DOI: 10.1016/j.bbrc.2012.02.131
The E3 ligase AtRDUF1 positively regulates salt stress responses in Arabidopsis thaliana.2013 · DOI: 10.1371/journal.pone.0071078

Rice

Reference gene IDPossible functionPapers / DOI
Os05g0488800 Possesses E3 ubiqutin-protein ligase activity in vitro.
Molecular dissection of Oryza sativa salt-induced RING Finger Protein 1 (OsSIRP1): possible involvement in the sensitivity response to salinity stress.2016 · DOI: 10.1111/ppl.12459
Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_035544 · 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:0006511 ubiquitin-dependent protein catabolic process Biological Process
GO:0006970 response to osmotic stress Biological Process
GO:0009414 response to water deprivation Biological Process
GO:0009651 response to salt stress Biological Process
GO:0009738 abscisic acid-activated signaling pathway Biological Process
GO:0009938 negative regulation of gibberellic acid mediated signaling pathway Biological Process
GO:0016567 protein ubiquitination Biological Process
GO:0047484 regulation of response to osmotic stress Biological Process
GO:0090378 seed trichome elongation Biological Process
GO:1902006 negative regulation of L-proline biosynthetic process Biological Process
GO:0005634 nucleus Cellular Component
GO:0005737 cytoplasm Cellular Component
KEGG gene cross-reference
ath:AT2G40830
ath:AT3G19950
ath:AT3G56580
dosa:Os05g0488800
osa:4339152
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.

Cytoplasm0.465
Rank 1 · TkA04G095250 · TK1151
Nucleus0.349
Rank 2 · TkA04G095250 · TK1151
Lysosome / Vacuole0.121
Rank 3 · TkA04G095250 · TK1151
Endoplasmic reticulum0.116
Rank 4 · TkA04G095250 · TK1151
Cell membrane0.089
Rank 5 · TkA04G095250 · 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.

PF09845OapC13-85 aa
PF23145Zf_2nd_IFT12115-21 aa
PF13639zf-RING_216-30 aa
PF23137HVO_075816-42 aa
PF23555zf-RING_Vps4116-23 aa
PF25998U-box_ZFPL116-24 aa
PF23217DUF706616-36 aa
PF23145Zf_2nd_IFT12134-47 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA04G095250PF09845OapC13850.08813.8
TkA04G095250PF23145Zf_2nd_IFT12115211.49.4
TkA04G095250PF13639zf-RING_216301.1e-1042.3
TkA04G095250PF23137HVO_075816420.6610.5
TkA04G095250PF23555zf-RING_Vps4116231.29.5
TkA04G095250PF25998U-box_ZFPL116241.69.9
TkA04G095250PF23217DUF706616364.68.0
TkA04G095250PF23145Zf_2nd_IFT12134471.49.4
TkA04G095250PF13923zf-C3HC4_237486.9e-0832.9
TkA04G095250PF23146Zf_IFT144_1st37420.610.8
TkA04G095250PF12861zf-ANAPC1138430.002518.5
TkA04G095250PF13751DDE_Tnp_1_657962.69.0
TkA04G095250PF23217DUF70662162344.68.0
TkA04G095250PF13751DDE_Tnp_1_62222612.69.0
TkA04G095250PF09845OapC2722980.08813.8
TkA04G095250PF23137HVO_07582923080.6610.5

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
Q8LPN7Arabidopsis thalianasp|Q8LPN7|RNG1L_ARATH E3 ubiquitin-protein ligase RING1-like45.000%Swiss-ProtLow
Q9SPL2Arabidopsis thalianasp|Q9SPL2|CIP8_ARATH E3 ubiquitin-protein ligase CIP842.700%Swiss-ProtLow
Q9SNB6Arabidopsis thalianasp|Q9SNB6|RDUF1_ARATH E3 ubiquitin-protein ligase RDUF143.400%Swiss-ProtLow
Q6AVN2Oryza sativa subsp. japonicasp|Q6AVN2|SIRP1_ORYSJ E3 ubiquitin-protein ligase SIRP139.000%Swiss-ProtLow

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