TkA04G028800 | RubberDandelionOmics

Gene overview

TkA04G028800

Reference: TK1151 Chr: Chr04 Coordinates: 7581899-7583755 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1442 bp · TkA04G028800|TK1151|cDNA

TCATGGCTGTTGAGAAGGTACAAACGACAAAATTAGCTTCAAGTTCCTTGGCCACCATTGGCACATCACTTCTAAGTCAGATGTTAAGAGTCAACTTTCATGGATTAGGTAGCGAATTCAAGTTTATGAATGGTAGAACGGTCTCAAAAGCCATGGAAGTTGTAAATGTGATTGGTAAGGGTGATAGGAGAGTCGGGTACTACTGGATGGATACCAATGAGTTTTTGAACAAAATTGGAAAATCGAATTCCTCTTCAAAT...

CDS

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1440 bp · TkA04G028800|TK1151|CDS

ATGGCTGTTGAGAAGGTACAAACGACAAAATTAGCTTCAAGTTCCTTGGCCACCATTGGCACATCACTTCTAAGTCAGATGTTAAGAGTCAACTTTCATGGATTAGGTAGCGAATTCAAGTTTATGAATGGTAGAACGGTCTCAAAAGCCATGGAAGTTGTAAATGTGATTGGTAAGGGTGATAGGAGAGTCGGGTACTACTGGATGGATACCAATGAGTTTTTGAACAAAATTGGAAAATCGAATTCCTCTTCAAATCA...

Protein

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479 aa · TkA04G028800|TK1151|PROTEIN

MAVEKVQTTKLASSSLATIGTSLLSQMLRVNFHGLGSEFKFMNGRTVSKAMEVVNVIGKGDRRVGYYWMDTNEFLNKIGKSNSSSNHGLESIIWPGGTTTIPNKRMLQTNGKKLRILFPNSSRFRNLAQLIVDPRTNQSVVSGFCGDVFNAAFSSLDYGVGVEVVPFYYKDGVTYNNVIETMYLKEYDAAIGDFTITSNRSLYVDFTLPFTNLRVGIVSRNTKNNEEFKGSTSQQIGTTLWFAFSTLVYAHQEKLQSNLS...

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	`TkA04G028800`
TK1151 ID	TkA04G028800
OH-1004 ID	LXL04_036699
Relationship / confidence	Non Reciprocal Best Hit / Complex relationship
Protein identity (%)	93.200
Protein coverage (%)	TK1151 100.000 / OH-1004 62.152 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 TkA04G028800

Location Chr04:7581899-7583755 (-)

Description Similar to GLR1.2: Glutamate receptor 1.2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g48410`	Glutamate-gated receptor that probably acts as a non-selective cation channel.	No verified direct reference in this release
`At5g48400`	Glutamate-gated receptor that probably acts as a non-selective cation channel.	No verified direct reference in this release
`At3g07520`	Glutamate-gated receptor that probably acts as a non-selective cation channel.	Arabidopsis thaliana glutamate receptor ion channel function demonstrated by ion pore transplantation.2008 · DOI: 10.1016/j.jmb.2008.06.076
`At2g29110`	Glutamate-gated receptor that probably acts as a non-selective cation channel.	No verified direct reference in this release
`At3g04110`	Glutamate-gated receptor that probably acts as a non-selective cation channel.	The putative glutamate receptor 1.1 (AtGLR1.1) functions as a regulator of carbon and nitrogen metabolism in Arabidopsis thaliana.2003 · DOI: 10.1073/pnas.1030961100 The putative glutamate receptor 1.1 (AtGLR1.1) in Arabidopsis thaliana regulates abscisic acid biosynthesis and signaling to control development and water loss.2004 · DOI: 10.1093/pcp/pch159 Arabidopsis thaliana glutamate receptor ion channel function demonstrated by ion pore transplantation.2008 · DOI: 10.1016/j.jmb.2008.06.076

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_036699 · 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:0006813 potassium ion transport Biological Process

GO:0006814 sodium ion transport Biological Process

GO:0006816 calcium ion transport Biological Process

GO:0006874 intracellular calcium ion homeostasis Biological Process

GO:0009416 response to light stimulus Biological Process

GO:0009737 response to abscisic acid Biological Process

GO:0009738 abscisic acid-activated signaling pathway Biological Process

GO:0019722 calcium-mediated signaling Biological Process

GO:0030003 intracellular monoatomic cation homeostasis Biological Process

GO:0071230 cellular response to amino acid stimulus Biological Process

GO:0000325 plant-type vacuole Cellular Component

GO:0005886 plasma membrane Cellular Component

KEGG gene cross-reference

ath:AT2G29120

ath:AT3G04110

ath:AT3G07520

ath:AT5G48400

ath:AT5G48410

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.

Cell membrane0.762

Rank 1 · TkA04G028800 · TK1151

Endoplasmic reticulum0.081

Rank 2 · TkA04G028800 · TK1151

Cytoplasm0.069

Rank 3 · TkA04G028800 · TK1151

Lysosome / Vacuole0.066

Rank 4 · TkA04G028800 · TK1151

Golgi apparatus0.031

Rank 5 · TkA04G028800 · 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.

PF10613Lig_chan-Glu_bd137-221 aa

PF00497SBP_bac_3139-408 aa

PF00060Lig_chan224-441 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA04G028800	`PF10613`	Lig_chan-Glu_bd	137	221	1.3e-08	35.6
TkA04G028800	`PF00497`	SBP_bac_3	139	408	8.7e-14	52.1
TkA04G028800	`PF00060`	Lig_chan	224	441	9.3e-21	74.9

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q9FH75`	Arabidopsis thaliana	sp\|Q9FH75\|GLR13_ARATH Glutamate receptor 1.3	38.200%	Swiss-Prot	Medium
`Q9LV72`	Arabidopsis thaliana	sp\|Q9LV72\|GLR12_ARATH Glutamate receptor 1.2	38.900%	Swiss-Prot	Medium
`Q8LGN1`	Arabidopsis thaliana	sp\|Q8LGN1\|GLR14_ARATH Glutamate receptor 1.4	38.700%	Swiss-Prot	Medium
`Q9C5V5`	Arabidopsis thaliana	sp\|Q9C5V5\|GLR28_ARATH Glutamate receptor 2.8	31.600%	Swiss-Prot	Medium
`Q9M8W7`	Arabidopsis thaliana	sp\|Q9M8W7\|GLR11_ARATH Glutamate receptor 1.1	32.000%	Swiss-Prot	Medium

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