TkA02G425150 | RubberDandelionOmics

Gene overview

TkA02G425150

Reference: TK1151 Chr: Chr02 Coordinates: 107975336-107976526 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1161 bp · TkA02G425150|TK1151|cDNA

ATGAAGGATCCTGTAACGCTCTCAACGGGAATAACATATGATCGTGAAGCCATAGAAAAATGGTTGCACACTCGAAAAAACAACACGTGTCCGATCACCAAGCAACACCTTACAGATTTAGAACTCACCCCAAATCACACCCTTCGTCGATTGATCCAATCATGGTGCACCATTAATGCGCCATCTGGTATCGAAAGATTCCCCACTCCACGGCTTCCAGTCTCCAAATCGCAGATTTTGAAGCTTCTAAAAGATTCTAA...

CDS

Download CDS FASTA

1161 bp · TkA02G425150|TK1151|CDS

ATGAAGGATCCTGTAACGCTCTCAACGGGAATAACATATGATCGTGAAGCCATAGAAAAATGGTTGCACACTCGAAAAAACAACACGTGTCCGATCACCAAGCAACACCTTACAGATTTAGAACTCACCCCAAATCACACCCTTCGTCGATTGATCCAATCATGGTGCACCATTAATGCGCCATCTGGTATCGAAAGATTCCCCACTCCACGGCTTCCAGTCTCCAAATCGCAGATTTTGAAGCTTCTAAAAGATTCTAA...

Protein

Download Protein FASTA

386 aa · TkA02G425150|TK1151|PROTEIN

MKDPVTLSTGITYDREAIEKWLHTRKNNTCPITKQHLTDLELTPNHTLRRLIQSWCTINAPSGIERFPTPRLPVSKSQILKLLKDSKSPNLQMKCLKRLKTIVLESDMNKRSMEAVGAADYLSYIICNSNCNPTSVSPAEESVSILYHLHLSETGINSLFGKGGEFVDALTRVMQRATSYESRTYAVLLLKTMFEVAEPIEMMSIKPNLFKELTQILANQISLKATKAALKLLIGVCPWGRNRVKAVEAGVVTVLIDTLL...

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	`TkA02G425150`
TK1151 ID	TkA02G425150
OH-1004 ID	LXL04_014445
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	96.700
Protein coverage (%)	TK1151 100.000 / OH-1004 94.737 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 TkA02G425150

Location Chr02:107975336-107976526 (-)

Description Similar to PUB23: E3 ubiquitin-protein ligase PUB23

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g35930`	E3 ubiquitin-protein ligase that negatively regulates water stress response.	Arabidopsis PUB22 and PUB23 are homologous U-Box E3 ubiquitin ligases that play combinatory roles in response to drought stress.2008 · DOI: 10.1105/tpc.108.060699 Negative regulation of PAMP-triggered immunity by an E3 ubiquitin ligase triplet in Arabidopsis.2008 · DOI: 10.1016/j.cub.2008.07.085
`At3g52450`	E3 ubiquitin-protein ligase that negatively regulates water stress response.	Arabidopsis PUB22 and PUB23 are homologous U-Box E3 ubiquitin ligases that play combinatory roles in response to drought stress.2008 · DOI: 10.1105/tpc.108.060699 Negative regulation of PAMP-triggered immunity by an E3 ubiquitin ligase triplet in Arabidopsis.2008 · DOI: 10.1016/j.cub.2008.07.085 The ubiquitin ligase PUB22 targets a subunit of the exocyst complex required for PAMP-triggered responses in Arabidopsis.2012 · DOI: 10.1105/tpc.112.104463
`At3g11840`	E3 ubiquitin-protein ligase that acts as a negative regulator of the immunity triggered by the pathogen-associated molecular patterns (PAMPs), in association with PUB22 and PUB23.	Negative regulation of PAMP-triggered immunity by an E3 ubiquitin ligase triplet in Arabidopsis.2008 · DOI: 10.1016/j.cub.2008.07.085
`At1g49780`	Functions as an E3 ubiquitin ligase.	No verified direct reference in this release
`At5g37490`	Functions as an E3 ubiquitin ligase.	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_014445 · 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:0002679 respiratory burst involved in defense response Biological Process

GO:0006952 defense response Biological Process

GO:0009414 response to water deprivation Biological Process

GO:0016567 protein ubiquitination Biological Process

GO:0051865 protein autoubiquitination Biological Process

GO:0098542 defense response to other organism Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005829 cytosol Cellular Component

GO:0004842 ubiquitin-protein transferase activity Molecular Function

GO:0061630 ubiquitin protein ligase activity Molecular Function

KEGG gene cross-reference

ath:AT2G35930

ath:AT3G11840

ath:AT3G19380

ath:AT3G52450

ath:AT5G37490

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

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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.

Nucleus0.554

Rank 1 · TkA02G425150 · TK1151

Cytoplasm0.425

Rank 2 · TkA02G425150 · TK1151

Cell membrane0.094

Rank 3 · TkA02G425150 · TK1151

Endoplasmic reticulum0.042

Rank 4 · TkA02G425150 · TK1151

Lysosome / Vacuole0.025

Rank 5 · TkA02G425150 · TK1151

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

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

PF04564U-box1-57 aa

PF11789zf-Nse12-32 aa

PF08167RIX169-103 aa

PF28319ERICH1_C77-110 aa

PF02204VPS977-127 aa

PF24768ARM_ARMC578-178 aa

PF25598ARM_PUB79-379 aa

PF13083KH_KhpA-B135-187 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA02G425150	`PF04564`	U-box	1	57	3.8e-16	59.7
TkA02G425150	`PF11789`	zf-Nse	12	32	0.056	14.0
TkA02G425150	`PF08167`	RIX1	69	103	0.13	12.6
TkA02G425150	`PF28319`	ERICH1_C	77	110	0.00073	20.6
TkA02G425150	`PF02204`	VPS9	77	127	0.08	14.0
TkA02G425150	`PF24768`	ARM_ARMC5	78	178	5.8e-08	33.2
TkA02G425150	`PF25598`	ARM_PUB	79	379	8.7e-80	269.1
TkA02G425150	`PF13083`	KH_KhpA-B	135	187	0.069	13.8
TkA02G425150	`PF08167`	RIX1	177	278	0.13	12.6
TkA02G425150	`PF02204`	VPS9	186	221	0.08	14.0
TkA02G425150	`PF24768`	ARM_ARMC5	208	340	5.8e-08	33.2
TkA02G425150	`PF28319`	ERICH1_C	250	279	0.00073	20.6
TkA02G425150	`PF24768`	ARM_ARMC5	314	361	5.8e-08	33.2

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
`Q84TG3`	Arabidopsis thaliana	sp\|Q84TG3\|PUB23_ARATH E3 ubiquitin-protein ligase PUB23	56.700%	Swiss-Prot	High
`Q9SVC6`	Arabidopsis thaliana	sp\|Q9SVC6\|PUB22_ARATH E3 ubiquitin-protein ligase PUB22	52.800%	Swiss-Prot	High
`Q9SF15`	Arabidopsis thaliana	sp\|Q9SF15\|PUB24_ARATH E3 ubiquitin-protein ligase PUB24	33.800%	Swiss-Prot	Medium
`Q9FXA4`	Arabidopsis thaliana	sp\|Q9FXA4\|PUB26_ARATH U-box domain-containing protein 26	30.600%	Swiss-Prot	Medium
`Q5PNY6`	Arabidopsis thaliana	sp\|Q5PNY6\|PUB21_ARATH U-box domain-containing protein 21	28.100%	Swiss-Prot	Low

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