TkA01G094960 | RubberDandelionOmics

Gene overview

TkA01G094960

Reference: TK1151 Chr: Chr01 Coordinates: 23992237-23994831 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2487 bp · TkA01G094960|TK1151|cDNA

AAACGATCAGCTCGTGTAAAATTAAATGCAATGTCCAAACTCCAAAGTCTCCGTTGTTGTTGTTGATGCAGCTGCGGCCCTACACCTCTGTTCTCTCTCGCTCTCTCAACGAAGCTTCTTTTCGCGCGTCGGTTCACACCAGGTTACTGTTAACTAATGTCTACGAACCTTGATACACTTGAATCGAGTTCCGATGCTGTTGTTTCAACTGAAGCTCCAAGTAACAGCGATGTGGCGATAAGTGATGAGGTTAAGGTTAA...

CDS

Download CDS FASTA

2184 bp · TkA01G094960|TK1151|CDS

ATGTCTACGAACCTTGATACACTTGAATCGAGTTCCGATGCTGTTGTTTCAACTGAAGCTCCAAGTAACAGCGATGTGGCGATAAGTGATGAGGTTAAGGTTAATATTGCAGTTGGAGCTGACTTGTTAGAATCGAATGCTGGAACCCTAACGATAAACGGTGATACTGCTGTACATGATTCAGTCAATGATACTAGGGTTTCCGGAGATGAAAAAGGGACTGTAGTCGAGAATGTTGAGATGATTCTCGAAGAAAAGGA...

Protein

Download Protein FASTA

727 aa · TkA01G094960|TK1151|PROTEIN

MSTNLDTLESSSDAVVSTEAPSNSDVAISDEVKVNIAVGADLLESNAGTLTINGDTAVHDSVNDTRVSGDEKGTVVENVEMILEEKEKEVNDEEKEGEYKVSDLVWAKVRNYPWWPGQIFDPSSATDIARKHSNKKGFLVAYFGDQTFAWNEKSKIKPFRKNFSKMQKQSDSKKFHHAVDCALDEALRRTEFGLSCSCVSKEVFEYIKSQTFMNAGIKKEDSRIEGGDRFSTVSTFKPANIAQSVQDLAREHFDGFNKLQ...

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	`TkA01G094960`
TK1151 ID	TkA01G094960
OH-1004 ID	LXL04_004944
Relationship / confidence	Rbh Sequence Supported / Probable
Protein identity (%)	94.600
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 TkA01G094960

Location Chr01:23992237-23994831 (-)

Description Similar to Glyr1: Putative oxidoreductase GLYR1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g02950`	May influence gene expression by regulating the function of the PRC2 complex and modulating H3K27me3 level.	No verified direct reference in this release
`At3g09670`	Together with PDP1, PDP3 and PDP6, interacts with MSI4/FVE and MSI5 to suppress FLC, MAF4 and MAF5 expression by regulating the function of the PRC2 complex and modulating H3K27me3 level, thereby promoting flowering.	No verified direct reference in this release
`At5g40340`	Together with PDP1, PDP2 and PDP6, interacts with MSI4/FVE and MSI5 to suppress FLC, MAF4 and MAF5 expression by regulating the function of the PRC2 complex and modulating H3K27me3 level, thereby promoting flowering.	Arabidopsis PWWP domain proteins mediate H3K27 trimethylation on FLC and regulate flowering time.2018 · DOI: 10.1111/jipb.12630

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_004944 · 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:0006351 DNA-templated transcription Biological Process

GO:0006355 regulation of DNA-templated transcription Biological Process

GO:0009908 flower development Biological Process

GO:0040029 epigenetic regulation of gene expression Biological Process

GO:2000028 regulation of photoperiodism, flowering Biological Process

GO:0005634 nucleus Cellular Component

GO:0005730 nucleolus Cellular Component

GO:0009506 plasmodesma Cellular Component

GO:0035098 ESC/E(Z) complex Cellular Component

KEGG gene cross-reference

ath:AT3G09670

ath:AT5G02950

ath:AT5G27650

ath:AT5G40340

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.

Nucleus0.969

Rank 1 · TkA01G094960 · TK1151

Cytoplasm0.069

Rank 2 · TkA01G094960 · TK1151

Cell membrane0.026

Rank 3 · TkA01G094960 · TK1151

Endoplasmic reticulum0.014

Rank 4 · TkA01G094960 · TK1151

Plastid0.008

Rank 5 · TkA01G094960 · 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.

PF00855PWWP103-185 aa

PF00855PWWP433-461 aa

PF26309DUF8082443-455 aa

PF26309DUF8082490-508 aa

PF26309DUF8082537-555 aa

PF00855PWWP553-553 aa

PF26309DUF8082580-598 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA01G094960	`PF00855`	PWWP	103	185	6.2e-21	75.4
TkA01G094960	`PF00855`	PWWP	433	461	6.2e-21	75.4
TkA01G094960	`PF26309`	DUF8082	443	455	6.0	7.9
TkA01G094960	`PF26309`	DUF8082	490	508	6.0	7.9
TkA01G094960	`PF26309`	DUF8082	537	555	6.0	7.9
TkA01G094960	`PF00855`	PWWP	553	553	6.2e-21	75.4
TkA01G094960	`PF26309`	DUF8082	580	598	6.0	7.9

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
`Q9LYZ0`	Arabidopsis thaliana	sp\|Q9LYZ0\|PDP5_ARATH PWWP domain-containing protein 5	30.400%	Swiss-Prot	Medium
`Q9SF36`	Arabidopsis thaliana	sp\|Q9SF36\|PDP2_ARATH PWWP domain-containing protein 2	49.100%	Swiss-Prot	Low
`Q9FNE4`	Arabidopsis thaliana	sp\|Q9FNE4\|PDP3_ARATH PWWP domain-containing protein 3	37.600%	Swiss-Prot	Low

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