TkA07G063980 | RubberDandelionOmics

Gene overview

TkA07G063980

Reference: TK1151 Chr: Chr07 Coordinates: 16919090-16921065 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1069 bp · TkA07G063980|TK1151|cDNA

CGAAAAAATCTCATAAACCCTCGTTATCAGCTGCATAAGCCAAAAAGCCCTCGTCTAGGGTTTTATTCATCAACGTTCTCTCTGAAAGATCAGAGTACCCGAGGTTATAAGATACAACCATGGCTTTCTTCAACAGAGCTAGTAGTATACTAAGGCAGGTTACTGCAAGCAAACACATCAATCACCAAATGTCAGCAGCTACTCCATCCATCTTTCAGATGATAAGATGCATGTCCAGCTCCAAAGTCTTTGTCGGAGGA...

CDS

Download CDS FASTA

669 bp · TkA07G063980|TK1151|CDS

ATGGCTTTCTTCAACAGAGCTAGTAGTATACTAAGGCAGGTTACTGCAAGCAAACACATCAATCACCAAATGTCAGCAGCTACTCCATCCATCTTTCAGATGATAAGATGCATGTCCAGCTCCAAAGTCTTTGTCGGAGGATTGGCATGGGCCACAGATGACATGAGTTTGAGAGAAGCTTTTAGCGCCTATGGTGAAGTCCATGAAGCTAGAGTGATTATGGATAGAGAAACTGGGCGTTCAAGAGGTTTTGGCTTCGT...

Protein

Download Protein FASTA

222 aa · TkA07G063980|TK1151|PROTEIN

MAFFNRASSILRQVTASKHINHQMSAATPSIFQMIRCMSSSKVFVGGLAWATDDMSLREAFSAYGEVHEARVIMDRETGRSRGFGFVTYSDTEAASAAIQAMDQKELHGRLVRVNYANDRPQGGGGFRQGGGGGYGGGGYGGGGGGYGGGGYGGGGGYGGGGGGYGGGGDSYGGGGYGGEGQQAAAGGGYGGGDAAPSFGADDGPAEGSYNNDVPDDFAKRA

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	`TkA07G063980`
TK1151 ID	TkA07G063980
OH-1004 ID	LXL04_014533
Relationship / confidence	Non Reciprocal Best Hit / Complex relationship
Protein identity (%)	51.900
Protein coverage (%)	TK1151 60.811 / OH-1004 90.411 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 TkA07G063980

Location Chr07:16919090-16921065 (-)

Description Similar to RBG2: Glycine-rich RNA-binding protein 2, mitochondrial

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g61030`	Possibly has a role in RNA transcription or processing during stress (By similarity).	Two RNA recognition motif-containing proteins are plant mitochondrial editing factors.2015 · DOI: 10.1093/nar/gkv245
`At1g74230`	Possibly has a role in RNA transcription or processing during stress (By similarity).	RNA Recognition Motif-Containing Protein ORRM4 Broadly Affects Mitochondrial RNA Editing and Impacts Plant Development and Flowering.2016 · DOI: 10.1104/pp.15.01280
`At4g13850`	Promotes the cis-splicing and editing of several mitochondrial RNAs (including NAD5 transcripts).	No verified direct reference in this release
`At3g23830`	Possibly has a role in RNA transcription or processing during stress.	Characterization of transgenic Arabidopsis plants overexpressing GR-RBP4 under high salinity, dehydration, or cold stress.2005 · DOI: 10.1093/jxb/eri298

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_014533 · 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:0006397 mRNA processing Biological Process

GO:0006412 translation Biological Process

GO:0006858 extracellular transport Biological Process

GO:0006970 response to osmotic stress Biological Process

GO:0009409 response to cold Biological Process

GO:0009414 response to water deprivation Biological Process

GO:0009631 cold acclimation Biological Process

GO:0009651 response to salt stress Biological Process

GO:0009845 seed germination Biological Process

GO:0016554 cytidine to uridine editing Biological Process

GO:0050658 RNA transport Biological Process

GO:0050688 regulation of defense response to virus Biological Process

KEGG gene cross-reference

ath:AT1G74230

ath:AT3G23830

ath:AT4G13850

ath:AT5G47320

ath:AT5G61030

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.

Mitochondrion0.922

Rank 1 · TkA07G063980 · TK1151

Cytoplasm0.118

Rank 2 · TkA07G063980 · TK1151

Nucleus0.076

Rank 3 · TkA07G063980 · TK1151

Plastid0.059

Rank 4 · TkA07G063980 · TK1151

Extracellular0.039

Rank 5 · TkA07G063980 · 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.

PF28442DUF84002-20 aa

PF16367RRM_740-106 aa

PF00076RRM_143-112 aa

PF13893RRM_543-115 aa

PF26250RRM_RdRP1_263-107 aa

PF28442DUF840070-115 aa

PF29326RRM_MUD2_C85-119 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA07G063980	`PF28442`	DUF8400	2	20	0.1	13.5
TkA07G063980	`PF16367`	RRM_7	40	106	1.9e-05	25.2
TkA07G063980	`PF00076`	RRM_1	43	112	3.3e-21	75.6
TkA07G063980	`PF13893`	RRM_5	43	115	0.23	11.9
TkA07G063980	`PF26250`	RRM_RdRP1_2	63	107	0.21	12.8
TkA07G063980	`PF28442`	DUF8400	70	115	0.1	13.5
TkA07G063980	`PF29326`	RRM_MUD2_C	85	119	0.3	11.9

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
`Q9FNR1`	Arabidopsis thaliana	sp\|Q9FNR1\|RBG3_ARATH Glycine-rich RNA-binding protein 3, mitochondrial	63.200%	Swiss-Prot	Medium
`Q9C909`	Arabidopsis thaliana	sp\|Q9C909\|RBG5_ARATH Glycine-rich RNA-binding protein 5, mitochondrial	54.000%	Swiss-Prot	Medium
`Q9SVM8`	Arabidopsis thaliana	sp\|Q9SVM8\|RBG2_ARATH Glycine-rich RNA-binding protein 2, mitochondrial	51.900%	Swiss-Prot	Medium
`Q9LIS2`	Arabidopsis thaliana	sp\|Q9LIS2\|RBG4_ARATH Glycine-rich RNA-binding protein 4, mitochondrial	53.300%	Swiss-Prot	Medium

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