TkA02G478250 | RubberDandelionOmics

Gene overview

TkA02G478250

Reference: TK1151 Chr: Chr02 Coordinates: 122040983-122042133 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1038 bp · TkA02G478250|TK1151|cDNA

ATGGACAACAGACTTGAAAGTATCATCAGTCGCCTTAACAACCGACCACGAGTCAATGAGTCGCCGTTGCAGTCGCCGACGGTTCACCATGTTCAAAGACTATCGCAACTATATCAGTCTGCTGTGATCAACAACGGAACACATGTGACTCCGGTGCAGGTGGATTCCGATTCAGATCCTGAGGCGGAGGACGACCAAGACGATGGTGTAGCAGAAGCGCAACATCTCGATCATCACGCAACTACTTCAGCTGTGACATC...

CDS

Download CDS FASTA

1038 bp · TkA02G478250|TK1151|CDS

ATGGACAACAGACTTGAAAGTATCATCAGTCGCCTTAACAACCGACCACGAGTCAATGAGTCGCCGTTGCAGTCGCCGACGGTTCACCATGTTCAAAGACTATCGCAACTATATCAGTCTGCTGTGATCAACAACGGAACACATGTGACTCCGGTGCAGGTGGATTCCGATTCAGATCCTGAGGCGGAGGACGACCAAGACGATGGTGTAGCAGAAGCGCAACATCTCGATCATCACGCAACTACTTCAGCTGTGACATC...

Protein

Download Protein FASTA

345 aa · TkA02G478250|TK1151|PROTEIN

MDNRLESIISRLNNRPRVNESPLQSPTVHHVQRLSQLYQSAVINNGTHVTPVQVDSDSDPEAEDDQDDGVAEAQHLDHHATTSAVTSAPAVAREEIPVVVTDPDMLHCSICHNSLCPPIYLCDNGHTSCTSCKTRSKNTCPSCRTPKGFKHWRGMDKLVESMKVECKYRWCGCRETFMFTKKAEHENKCRFTLCFCPISLCQPSTRCDYRHTYKNVYEHFYEAHMFCSVPFFYMEDLDITVEKTQKRIVLRGEDDGSLFI...

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.

ID Mapping

Input ID	`TkA02G478250`
TK1151 ID	TkA02G478250
OH-1004 ID	LXL04_013691
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	100.000
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 version	TK1151 / GWHBCHF00000000

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SNP / Indel variants and carrier samplesCRA009020 · TK1151

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID TkA02G478250

Location Chr02:122040983-122042133 (+)

Description Similar to At5g37930: E3 ubiquitin-protein ligase SINA-like 10

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g53360`	E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins.	SINAT5 promotes ubiquitin-related degradation of NAC1 to attenuate auxin signals.2002 · DOI: 10.1038/nature00998 SINAT E3 ligases regulate the stability of the ESCRT component FREE1 in response to iron deficiency in plants.2020 · DOI: 10.1111/jipb.13005

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_013691 · 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:0009411 response to UV Biological Process

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:AT1G66620

ath:AT5G37870

ath:AT5G37890

ath:AT5G37910

ath:AT5G37930

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.

Cytoplasm0.602

Rank 1 · TkA02G478250 · TK1151

Nucleus0.487

Rank 2 · TkA02G478250 · TK1151

Cell membrane0.054

Rank 3 · TkA02G478250 · TK1151

Mitochondrion0.052

Rank 4 · TkA02G478250 · TK1151

Endoplasmic reticulum0.039

Rank 5 · TkA02G478250 · 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.

PF14835zf-RING_6105-148 aa

PF21362Sina_RING108-143 aa

PF21361Sina_ZnF116-136 aa

PF21361Sina_ZnF157-224 aa

PF21362Sina_RING188-198 aa

PF21362Sina_RING224-228 aa

PF21361Sina_ZnF297-312 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA02G478250	`PF14835`	zf-RING_6	105	148	0.17	12.5
TkA02G478250	`PF21362`	Sina_RING	108	143	1.2e-07	32.5
TkA02G478250	`PF21361`	Sina_ZnF	116	136	1.9e-08	35.3
TkA02G478250	`PF21361`	Sina_ZnF	157	224	1.9e-08	35.3
TkA02G478250	`PF21362`	Sina_RING	188	198	1.2e-07	32.5
TkA02G478250	`PF21362`	Sina_RING	224	228	1.2e-07	32.5
TkA02G478250	`PF21361`	Sina_ZnF	297	312	1.9e-08	35.3

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

Protein	Organism	Description	Identity	Database	Confidence
`Q8S3N1`	Arabidopsis thaliana	sp\|Q8S3N1\|SINA5_ARATH E3 ubiquitin-protein ligase SINAT5	40.600%	Swiss-Prot	Low

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