TkA06G169790 | RubberDandelionOmics

Gene overview

TkA06G169790

Reference: TK1151 Chr: Chr06 Coordinates: 44629203-44632316 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1564 bp · TkA06G169790|TK1151|cDNA

AAAACTTGCCCCAAAAGCCCAGCTGAACAAACACCATCACTCATTCACTCCGCAGGTGGCGTTTGCACTCACTTTTTTTCGAACTACTCGCCTCAACCGCTCCATTTTCATCGAGATCATATAACAACATCCTTGATCGTGATCTTGATTTTCATCAGGAAGTTTTTAATAACGAGCAGAATGTCAACACAAAGTGAAGCTCCATCCACCACTCCAAGTGTACAAGTGGTTGGAAACGCCTTTGTTGAACAGTACTACCA...

CDS

Download CDS FASTA

1479 bp · TkA06G169790|TK1151|CDS

AAAACTTGCCCCAAAAGCCCAGCTGAACAAACACCATCACTCATTCACTCCGCAGGTGGCGTTTGCACTCACTTTTTTTCGAACTACTCGCCTCAACCGCTCCATTTTCATCGAGATCATATAACAACATCCTTGATCGTGATCTTGATTTTCATCAGGAAGTTTTTAATAACGAGCAGAATGTCAACACAAAGTGAAGCTCCATCCACCACTCCAAGTGTACAAGTGGTTGGAAACGCCTTTGTTGAACAGTACTACCA...

Protein

Download Protein FASTA

492 aa · TkA06G169790|TK1151|PROTEIN

KTCPKSPAEQTPSLIHSAGGVCTHFFSNYSPQPLHFHRDHITTSLIVILIFIRKFLITSRMSTQSEAPSTTPSVQVVGNAFVEQYYHILHHSPDMVHKFYQESSFISRPDEDGAMTTVTTMKGINDKICSLDYTAYKAEIKTADAQESYKDGVMVLVTGCLTKKDDNQRKKFIQSFFLAPQDKGFFVLNDVFRYVDEGKLLEDNHVVVEGTNDDQTTPLILDPPSQDVDSVDPPSQDVDSVDKEEVEHILENENKETHPN...

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	`TkA06G169790`
TK1151 ID	TkA06G169790
OH-1004 ID	LXL04_024177
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	100.000
Protein coverage (%)	TK1151 98.984 / OH-1004 92.235 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 TkA06G169790

Location Chr06:44629203-44632316 (+)

Description Similar to NTF2: Nuclear transport factor 2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g60980`	Involved in RNA-directed DNA methylation (RdDM).	AtMBD6, a methyl CpG binding domain protein, maintains gene silencing in Arabidopsis by interacting with RNA binding proteins.2017 · DOI: 10.1007/s12038-016-9658-1

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_024177 · 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:0007265 Ras protein signal transduction Biological Process

GO:0031047 regulatory ncRNA-mediated gene silencing Biological Process

GO:0032481 positive regulation of type I interferon production Biological Process

GO:0034063 stress granule assembly Biological Process

GO:0045087 innate immune response Biological Process

GO:0051607 defense response to virus Biological Process

GO:0090090 negative regulation of canonical Wnt signaling pathway Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005829 cytosol Cellular Component

GO:0005925 focal adhesion Cellular Component

GO:0009536 plastid Cellular Component

KEGG gene cross-reference

ath:AT5G60980

bta:534214

hsa:10146

mmu:27041

pon:100172476

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.

Cytoplasm0.621

Rank 1 · TkA06G169790 · TK1151

Nucleus0.381

Rank 2 · TkA06G169790 · TK1151

Cell membrane0.086

Rank 3 · TkA06G169790 · TK1151

Endoplasmic reticulum0.071

Rank 4 · TkA06G169790 · TK1151

Golgi apparatus0.056

Rank 5 · TkA06G169790 · 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.

PF13334DUF409444-69 aa

PF02136NTF277-194 aa

PF22602NXF_NTF279-107 aa

PF02759RUN82-132 aa

PF22602NXF_NTF2143-191 aa

PF13334DUF4094232-275 aa

PF22602NXF_NTF2289-317 aa

PF00076RRM_1353-411 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA06G169790	`PF13334`	DUF4094	44	69	0.26	12.4
TkA06G169790	`PF02136`	NTF2	77	194	1.7e-32	113.0
TkA06G169790	`PF22602`	NXF_NTF2	79	107	0.075	13.9
TkA06G169790	`PF02759`	RUN	82	132	0.18	12.6
TkA06G169790	`PF22602`	NXF_NTF2	143	191	0.075	13.9
TkA06G169790	`PF13334`	DUF4094	232	275	0.26	12.4
TkA06G169790	`PF22602`	NXF_NTF2	289	317	0.075	13.9
TkA06G169790	`PF00076`	RRM_1	353	411	4.6e-11	43.1
TkA06G169790	`PF13334`	DUF4094	355	370	0.26	12.4

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
`Q9FME2`	Arabidopsis thaliana	sp\|Q9FME2\|NTF2_ARATH Nuclear transport factor 2	48.300%	Swiss-Prot	Medium

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