TkA01G078790 | RubberDandelionOmics

Gene overview

TkA01G078790

Reference: TK1151 Chr: Chr01 Coordinates: 20147302-20148046 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

501 bp · TkA01G078790|TK1151|cDNA

ATGGCACGTTTTAGAATACAAGAACTCAAGGATGTTCTTGCCCAACTTGGTCTTCCAAGAACCGGGAGGAAGCAGGACCTCATGGATAGGATACTGACATTGCTTTCTGATCAAGATGGTAGTAAATTGTTATATACTAATTGTCCACAAAAGAACAAACTTAAGCAAAAGGAAGATGTAACAAAGATAATCGATGAAACTTATAGAAACATGCCACATTCAGGGCCTATTGAACCAATAACTGGTGGAAATTCAAATTG...

CDS

Download CDS FASTA

501 bp · TkA01G078790|TK1151|CDS

ATGGCACGTTTTAGAATACAAGAACTCAAGGATGTTCTTGCCCAACTTGGTCTTCCAAGAACCGGGAGGAAGCAGGACCTCATGGATAGGATACTGACATTGCTTTCTGATCAAGATGGTAGTAAATTGTTATATACTAATTGTCCACAAAAGAACAAACTTAAGCAAAAGGAAGATGTAACAAAGATAATCGATGAAACTTATAGAAACATGCCACATTCAGGGCCTATTGAACCAATAACTGGTGGAAATTCAAATTG...

Protein

Download Protein FASTA

166 aa · TkA01G078790|TK1151|PROTEIN

MARFRIQELKDVLAQLGLPRTGRKQDLMDRILTLLSDQDGSKLLYTNCPQKNKLKQKEDVTKIIDETYRNMPHSGPIEPITGGNSNCVSDTSNIKPKKEIMDQKIRCPCGSRLKTEFMIQCSDPQCHVLQHIPCVIIPLESTEEVPFLSSQHYCEICRIDRCDPYV

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	`TkA01G078790`
TK1151 ID	TkA01G078790
OH-1004 ID	LXL04_022015
Relationship / confidence	Non Reciprocal Best Hit / Complex relationship
Protein identity (%)	82.300
Protein coverage (%)	TK1151 99.398 / OH-1004 27.432 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

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Basic Information and Functional Annotation

Gene ID TkA01G078790

Location Chr01:20147302-20148046 (+)

Description Similar to SIZ1: E3 SUMO-protein ligase SIZ1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g60410`	E3 SUMO protein ligase involved in regulation processes.	The Arabidopsis SUMO E3 ligase SIZ1 controls phosphate deficiency responses.2005 · DOI: 10.1073/pnas.0500778102 SIZ1 small ubiquitin-like modifier E3 ligase facilitates basal thermotolerance in Arabidopsis independent of salicylic acid.2006 · DOI: 10.1104/pp.106.088831 Salicylic acid-mediated innate immunity in Arabidopsis is regulated by SIZ1 SUMO E3 ligase.2007 · DOI: 10.1111/j.1365-313x.2006.02947.x SIZ1-mediated sumoylation of ICE1 controls CBF3/DREB1A expression and freezing tolerance in Arabidopsis.2007 · DOI: 10.1105/tpc.106.048397 Genetic analysis of SUMOylation in Arabidopsis: conjugation of SUMO1 and SUMO2 to nuclear proteins is essential.2007 · DOI: 10.1104/pp.107.102285 The Arabidopsis E3 SUMO ligase SIZ1 regulates plant growth and drought responses.2007 · DOI: 10.1105/tpc.106.049981 The PHD domain of plant PIAS proteins mediates sumoylation of bromodomain GTE proteins.2008 · DOI: 10.1074/jbc.m708176200 Sumoylation of ABI5 by the Arabidopsis SUMO E3 ligase SIZ1 negatively regulates abscisic acid signaling.2009 · DOI: 10.1073/pnas.0811088106 SUMOylation represses SnRK1 signaling in Arabidopsis.2016 · DOI: 10.1111/tpj.13096

Rice

Reference gene ID	Possible function	Papers / DOI
`Os03g0719100`	Probable SUMO E3 ligase that may regulate Pi starvation responses.	No verified direct reference in this release
`Os05g0125000`	Probable SUMO E3 ligase that may regulate Pi starvation responses.	No verified direct reference in this release

Functional annotation source

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Functional annotation source: OH1004 · LXL04_022015 · 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:0002758 innate immune response-activating signaling pathway Biological Process

GO:0006281 DNA repair Biological Process

GO:0006357 regulation of transcription by RNA polymerase II Biological Process

GO:0006952 defense response Biological Process

GO:0006974 DNA damage response Biological Process

GO:0007131 reciprocal meiotic recombination Biological Process

GO:0009414 response to water deprivation Biological Process

GO:0009553 embryo sac development Biological Process

GO:0009787 regulation of abscisic acid-activated signaling pathway Biological Process

GO:0009826 unidimensional cell growth Biological Process

GO:0009910 negative regulation of flower development Biological Process

GO:0010113 negative regulation of systemic acquired resistance Biological Process

KEGG gene cross-reference

ath:AT5G60410

cel:CELE_W10D5.3

dosa:Os03g0719100

dosa:Os05g0125000

spo:2541580

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.

Nucleus0.831

Rank 1 · TkA01G078790 · TK1151

Cytoplasm0.267

Rank 2 · TkA01G078790 · TK1151

Mitochondrion0.037

Rank 3 · TkA01G078790 · TK1151

Cell membrane0.025

Rank 4 · TkA01G078790 · TK1151

Endoplasmic reticulum0.014

Rank 5 · TkA01G078790 · 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.

PF02037SAP4-34 aa

PF07498Rho_N5-39 aa

PF20272E2-Crich41-54 aa

PF13771zf-HC5HC2H47-58 aa

PF21202SLX1_C87-109 aa

PF13771zf-HC5HC2H92-136 aa

PF20272E2-Crich96-155 aa

PF20826PHD_5101-158 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA01G078790	`PF02037`	SAP	4	34	1.1e-08	35.2
TkA01G078790	`PF07498`	Rho_N	5	39	0.13	12.9
TkA01G078790	`PF20272`	E2-Crich	41	54	3.8	8.7
TkA01G078790	`PF13771`	zf-HC5HC2H	47	58	5.0	8.1
TkA01G078790	`PF21202`	SLX1_C	87	109	0.43	11.6
TkA01G078790	`PF13771`	zf-HC5HC2H	92	136	5.0	8.1
TkA01G078790	`PF20272`	E2-Crich	96	155	3.8	8.7
TkA01G078790	`PF20826`	PHD_5	101	158	0.011	16.5
TkA01G078790	`PF00628`	PHD	107	157	0.00068	20.3
TkA01G078790	`PF21202`	SLX1_C	109	158	0.43	11.6

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.

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Protein	Organism	Description	Identity	Database	Confidence
`Q680Q4`	Arabidopsis thaliana	sp\|Q680Q4\|SIZ1_ARATH E3 SUMO-protein ligase SIZ1	49.700%	Swiss-Prot	Medium
`Q6ASW7`	Oryza sativa subsp. japonica	sp\|Q6ASW7\|SIZ2_ORYSJ E3 SUMO-protein ligase SIZ2	41.700%	Swiss-Prot	Medium
`Q6L4L4`	Oryza sativa subsp. japonica	sp\|Q6L4L4\|SIZ1_ORYSJ E3 SUMO-protein ligase SIZ1	44.800%	Swiss-Prot	Medium

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