TkA04G028820 | RubberDandelionOmics

Gene overview

TkA04G028820

Reference: TK1151 Chr: Chr04 Coordinates: 7598450-7614457 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2644 bp · TkA04G028820|TK1151|cDNA

AGCACACAAAGATCCATCTTATAAGGAAGTAGAGGTGGGAGTGATACTTGACATGGAATCAGGGGTAGGGAAGGTCATTTACCGTTGCATCGCCATGGCTATATCTGACTTTTATATAGCTAATCCTCACTACAGAACAAGGATAGTTTTTAACACCAGGGACTACAAAGGAGAACCACTACGTGCCTTGTCTTCTGGTACTCAATTTTTTTTCTTCTTGATTTTACGAGTAAATGGCAAAATTGGTCCCTAATCAATCG...

CDS

Download CDS FASTA

2517 bp · TkA04G028820|TK1151|CDS

ATGGCGAGTTGCAGGTTTTTCCCATTTCTGATATTAACATTTCTTACCTTTCAAACCCTTTTATTAACAGCACACAAAGATCCATCTTATAAGGAAGTAGAGGTGGGAGTGATACTTGACATGGAATCAGGGGTAGGGAAGGTCATTTACCGTTGCATCGCCATGGCTATATCTGACTTTTATATAGCTAATCCTCACTACAGAACAAGGATAGTTTTTAACACCAGGGACTACAAAGGAGAACCACTACGTGCCTTGTC...

Protein

Download Protein FASTA

838 aa · TkA04G028820|TK1151|PROTEIN

MASCRFFPFLILTFLTFQTLLLTAHKDPSYKEVEVGVILDMESGVGKVIYRCIAMAISDFYIANPHYRTRIVFNTRDYKGEPLRALSSAVDLFDNTEVQAIIGPESIEARFLEVLEHKTNKPIFSLSTSTYSDQNPYLLRITQDETTELKGIASMVESFKANNVIVICEDTTTGRQMASYMISSFQEKNIHVTYTSLISTSKVDEELHKVQTMQNTVFVMHASPSLASNIFSRAKELGMMDEGYMWISTSKAMNLLDSMD...

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	`TkA04G028820`
TK1151 ID	TkA04G028820
OH-1004 ID	LXL04_036698
Relationship / confidence	Sequence Supported Annotation Or Model Conflict / Review
Protein identity (%)	99.700
Protein coverage (%)	TK1151 95.346 / OH-1004 51.515 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

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · TK1151

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID TkA04G028820

Location Chr04:7598450-7614457 (-)

Description Similar to GLR1.3: Glutamate receptor 1.3

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g48400`	Glutamate-gated receptor that probably acts as a non-selective cation channel.	No verified direct reference in this release
`At5g48410`	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_036698 · 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:0006816 calcium ion transport Biological Process

GO:0006874 intracellular calcium ion homeostasis Biological Process

GO:0009416 response to light stimulus 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:0005886 plasma membrane Cellular Component

GO:0005261 monoatomic cation channel activity Molecular Function

GO:0005262 calcium channel activity Molecular Function

GO:0008066 glutamate receptor activity Molecular Function

GO:0015276 ligand-gated monoatomic ion channel activity Molecular Function

GO:0038023 signaling receptor activity Molecular Function

KEGG gene cross-reference

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 membrane0.825

Rank 1 · TkA04G028820 · TK1151

Endoplasmic reticulum0.069

Rank 2 · TkA04G028820 · TK1151

Cytoplasm0.068

Rank 3 · TkA04G028820 · TK1151

Lysosome / Vacuole0.036

Rank 4 · TkA04G028820 · TK1151

Extracellular0.032

Rank 5 · TkA04G028820 · 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.

PF13458Peripla_BP_633-371 aa

PF01094ANF_receptor52-370 aa

PF09651Cas_APE2256147-202 aa

PF10613Lig_chan-Glu_bd453-535 aa

PF00497SBP_bac_3455-758 aa

PF11833CPP1-like546-632 aa

PF00060Lig_chan549-791 aa

PF11833CPP1-like760-787 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA04G028820	`PF13458`	Peripla_BP_6	33	371	7e-21	76.0
TkA04G028820	`PF01094`	ANF_receptor	52	370	6.6e-53	180.7
TkA04G028820	`PF09651`	Cas_APE2256	147	202	0.15	12.7
TkA04G028820	`PF10613`	Lig_chan-Glu_bd	453	535	3.9e-12	47.0
TkA04G028820	`PF00497`	SBP_bac_3	455	758	3.5e-15	56.6
TkA04G028820	`PF11833`	CPP1-like	546	632	0.42	10.9
TkA04G028820	`PF00060`	Lig_chan	549	791	1.8e-26	93.5
TkA04G028820	`PF11833`	CPP1-like	760	787	0.42	10.9

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
`Q9LV72`	Arabidopsis thaliana	sp\|Q9LV72\|GLR12_ARATH Glutamate receptor 1.2	39.300%	Swiss-Prot	Medium
`Q9FH75`	Arabidopsis thaliana	sp\|Q9FH75\|GLR13_ARATH Glutamate receptor 1.3	40.300%	Swiss-Prot	Medium
`Q8LGN1`	Arabidopsis thaliana	sp\|Q8LGN1\|GLR14_ARATH Glutamate receptor 1.4	38.500%	Swiss-Prot	Medium
`Q9C5V5`	Arabidopsis thaliana	sp\|Q9C5V5\|GLR28_ARATH Glutamate receptor 2.8	34.000%	Swiss-Prot	Medium
`Q9M8W7`	Arabidopsis thaliana	sp\|Q9M8W7\|GLR11_ARATH Glutamate receptor 1.1	35.100%	Swiss-Prot	Medium

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