TkA02G448590 | RubberDandelionOmics

Gene overview

TkA02G448590

Reference: TK1151 Chr: Chr02 Coordinates: 114080939-114088326 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2063 bp · TkA02G448590|TK1151|cDNA

GTAAGTTAATAAGCCTTCTGATAAAATATACAGTATTTTACAAAGAAAACAATAAAAGTTTTGAAGGATGGGTAAAAGCCAAAGAAATCCACGTTTTAGAACTGTTTCTTCCCTCTGCCGGCGGGATGAGTACTCAACTACCGGAGCTCACAACCCCTCAACCTTCAACCCTCTAATATCAATAATCACAACGCTTCATTCACCTGCCAACTCTTCTTTCTTCGGACTTTCCACGATTTTCATTCCATTAAGGTCAGATT...

CDS

Download CDS FASTA

1500 bp · TkA02G448590|TK1151|CDS

ATGAACAATCTACTGCGAAGAGCTACAGCACAGATCGGTTCATACACCAAAAATGCTGGAGGTTCTAGAATGTTACTGGCGAAGTGGACTAGTACAGAAGCAGTACGAAGTGATGATTCCACAATTGATCATAAAGGGTATAAGGGACATGACATGTTGGCTCCTTTTACTGCTGGATGGCAGACTGATGATTTGCATCCCTTGGTTATAGAGAAATCTGAGGGCTCATATGTGTATGACATCAATGGAAAGAAGTATCT...

Protein

Download Protein FASTA

499 aa · TkA02G448590|TK1151|PROTEIN

MNNLLRRATAQIGSYTKNAGGSRMLLAKWTSTEAVRSDDSTIDHKGYKGHDMLAPFTAGWQTDDLHPLVIEKSEGSYVYDINGKKYLDSLAGLWCTALGGSEPRLVDAATKQLNTLPFYHSFWNRTTKPSLDLAKELLEMFTATKMKKVFFTNSGSEANDTQVKLVWYYNNALGRPNKKKFIARAKSYHGSTLISASLSGLPALHQKFDLPTPFVLHTDCPHYWRYHLPGESEEQFSTRLATNLENLILKEGPETIAAFI...

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	`TkA02G448590`
TK1151 ID	TkA02G448590
OH-1004 ID	LXL04_014188
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	100.000
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

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Basic Information and Functional Annotation

Gene ID TkA02G448590

Location Chr02:114080939-114088326 (-)

Description Similar to GABA-TP1: Gamma aminobutyrate transaminase 1, mitochondrial

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g22200`	Transaminase that degrades gamma-amino butyric acid (GABA) and uses pyruvate or glyoxylate as amino-group acceptor, but not 2- oxoglutarate.	Pollen tube growth and guidance is regulated by POP2, an Arabidopsis gene that controls GABA levels.2003 · DOI: 10.1016/s0092-8674(03)00479-3 The Arabidopsis her1 mutant implicates GABA in E-2-hexenal responsiveness.2008 · DOI: 10.1111/j.1365-313x.2007.03323.x Biochemical characterization, mitochondrial localization, expression, and potential functions for an Arabidopsis gamma-aminobutyrate transaminase that utilizes both pyruvate and glyoxylate.2009 · DOI: 10.1093/jxb/erp044 Succinic semialdehyde dehydrogenase is involved in the robust patterning of Arabidopsis leaves along the adaxial-abaxial axis.2011 · DOI: 10.1093/pcp/pcr079
`At1g54840`	Prevents DNA hypermethylation and transcriptional silencing of transgenes and of some endogenous genes.	REPRESSOR OF SILENCING5 Encodes a Member of the Small Heat Shock Protein Family and Is Required for DNA Demethylation in Arabidopsis.2014 · DOI: 10.1105/tpc.114.126730 Regulation of active DNA demethylation by an α-crystallin domain protein in Arabidopsis.2014 · DOI: 10.1016/j.molcel.2014.06.008
`At1g54850`	Alpha-crystallin domain-containing protein 22.3.	No verified direct reference in this release
`At1g20870`	Acts as an anti-silencing factor that prevents DNA hypermethylation and gene repression.	The methyl-CpG-binding protein MBD7 facilitates active DNA demethylation to limit DNA hyper-methylation and transcriptional gene silencing.2015 · DOI: 10.1016/j.molcel.2015.01.009

Rice

Reference gene ID	Possible function	Papers / DOI
`UniProt: B8BBZ7`	Transaminase that degrades gamma-amino butyric acid (GABA).	No verified direct reference in this release
`Os08g0205900`	Transaminase that degrades gamma-amino butyric acid (GABA).	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_014188 · 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:0005985 sucrose metabolic process Biological Process

GO:0006020 inositol metabolic process Biological Process

GO:0006105 succinate metabolic process Biological Process

GO:0006536 glutamate metabolic process Biological Process

GO:0006540 gamma-aminobutyrate shunt Biological Process

GO:0006541 glutamine metabolic process Biological Process

GO:0009102 biotin biosynthetic process Biological Process

GO:0009448 gamma-aminobutyric acid metabolic process Biological Process

GO:0009450 gamma-aminobutyric acid catabolic process Biological Process

GO:0009651 response to salt stress Biological Process

GO:0009821 alkaloid biosynthetic process Biological Process

GO:0009860 pollen tube growth Biological Process

KEGG gene cross-reference

ath:AT3G22200

dosa:Os04g0614600

sly:543873

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.

Mitochondrion0.891

Rank 1 · TkA02G448590 · TK1151

Cytoplasm0.081

Rank 2 · TkA02G448590 · TK1151

Nucleus0.039

Rank 3 · TkA02G448590 · TK1151

Peroxisome0.025

Rank 4 · TkA02G448590 · TK1151

Plastid0.019

Rank 5 · TkA02G448590 · 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.

PF00202Aminotran_366-481 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA02G448590	`PF00202`	Aminotran_3	66	481	3.2e-90	303.4

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
`Q94CE5`	Arabidopsis thaliana	sp\|Q94CE5\|GATP_ARATH Gamma-aminobutyrate transaminase POP2, mitochondrial	77.400%	Swiss-Prot	High
`Q8RWL4`	Arabidopsis thaliana	sp\|Q8RWL4\|IDM2_ARATH Increased DNA methylation 2	42.300%	Swiss-Prot	Medium
`Q84K79`	Arabidopsis thaliana	sp\|Q84K79\|IDM2L_ARATH Alpha-crystallin domain-containing protein 22.3	54.100%	Swiss-Prot	Low
`Q9SYQ0`	Arabidopsis thaliana	sp\|Q9SYQ0\|IDM3_ARATH Increased DNA methylation 3	36.300%	Swiss-Prot	Low
`B8BBZ7`	Oryza sativa subsp. indica	sp\|B8BBZ7\|GATP3_ORYSI Probable gamma-aminobutyrate transaminase 3, mitochondrial	76.600%	Swiss-Prot	High
`Q6ZCF0`	Oryza sativa subsp. japonica	sp\|Q6ZCF0\|GATP3_ORYSJ Probable gamma-aminobutyrate transaminase 3, mitochondrial	76.400%	Swiss-Prot	High

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