TkA01G562410 | RubberDandelionOmics

Gene overview

TkA01G562410

Reference: TK1151 Chr: Chr01 Coordinates: 141389005-141390859 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1635 bp · TkA01G562410|TK1151|cDNA

ATGGCGATATTTGAAGGTGGGAAGAATGGAGGCGTTTATATGCCTCCATTGAAGGTGGGTCGTATGATGAGTAGCATTCAAGATAAAAGCAGCATGGAATATCAAAGAGTTAGTTGGGATGCGTTACGGAAGAGTTTAAATGGGCTGGTCAACAAGGTGAATGCAACAAATATAAAAAATCTCATCCCTGAGTTGTTTGCTGAAAATTTAATCAGGGGAAGAGGACTGTTTTGTCGATCATGTATCAAGTCCCAAATGGC...

CDS

Download CDS FASTA

1635 bp · TkA01G562410|TK1151|CDS

ATGGCGATATTTGAAGGTGGGAAGAATGGAGGCGTTTATATGCCTCCATTGAAGGTGGGTCGTATGATGAGTAGCATTCAAGATAAAAGCAGCATGGAATATCAAAGAGTTAGTTGGGATGCGTTACGGAAGAGTTTAAATGGGCTGGTCAACAAGGTGAATGCAACAAATATAAAAAATCTCATCCCTGAGTTGTTTGCTGAAAATTTAATCAGGGGAAGAGGACTGTTTTGTCGATCATGTATCAAGTCCCAAATGGC...

Protein

Download Protein FASTA

544 aa · TkA01G562410|TK1151|PROTEIN

MAIFEGGKNGGVYMPPLKVGRMMSSIQDKSSMEYQRVSWDALRKSLNGLVNKVNATNIKNLIPELFAENLIRGRGLFCRSCIKSQMACPGFTDVFAALVAVVNTKFPQVGDLLLRRIILQLQRAYKRNDKPQLLAAVKFIAHLVNQQVVHELIALELLTILLENPTDDSVEVAVGFVTECGSILEDLSPQGFHGVFERFRGILHEGEIDKRVQFLIEGLFALRKAKFQGHPAVRPELDLVELEDQLTHKASLLDELDSET...

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	`TkA01G562410`
TK1151 ID	TkA01G562410
OH-1004 ID	LXL04_022002
Relationship / confidence	Non Reciprocal Best Hit / Complex relationship
Protein identity (%)	84.400
Protein coverage (%)	TK1151 93.934 / OH-1004 56.803 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	`TkA01G562410`
Location	Chr01:141389005-141390859 (-)
Description	Similar to Cwc22: Pre-mRNA-splicing factor CWC22 homolog
Arabidopsis / Rice Reference Genes and Papers	Download references for this gene Arabidopsis No hit for this species in the current source table. Rice No hit for this species in the current source table.
Functional annotation source	View annotation sources Functional annotation source: OH1004 · `LXL04_022002` · 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:0000398 mRNA splicing, via spliceosome Biological Process GO:0048024 regulation of mRNA splicing, via spliceosome Biological Process GO:0005634 nucleus Cellular Component GO:0005654 nucleoplasm Cellular Component GO:0005681 spliceosomal complex Cellular Component GO:0005829 cytosol Cellular Component GO:0016607 nuclear speck Cellular Component GO:0071005 U2-type precatalytic spliceosome Cellular Component GO:0071006 U2-type catalytic step 1 spliceosome Cellular Component GO:0071007 U2-type catalytic step 2 spliceosome Cellular Component GO:0071013 catalytic step 2 spliceosome Cellular Component GO:0071018 U12-type catalytic step 2 spliceosome Cellular Component
KEGG gene cross-reference	hsa:57703 mmu:80744 xla:734468 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.

Cytoplasm0.656

Rank 1 · TkA01G562410 · TK1151

Nucleus0.377

Rank 2 · TkA01G562410 · TK1151

Cell membrane0.079

Rank 3 · TkA01G562410 · TK1151

Golgi apparatus0.062

Rank 4 · TkA01G562410 · TK1151

Endoplasmic reticulum0.054

Rank 5 · TkA01G562410 · 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.

PF02854MIF4G44-225 aa

PF25504HEAT_5MP1_2135-163 aa

PF02847MA3319-424 aa

PF02854MIF4G357-396 aa

PF25504HEAT_5MP1_2360-503 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA01G562410	`PF02854`	MIF4G	44	225	7.1e-15	56.0
TkA01G562410	`PF25504`	HEAT_5MP1_2	135	163	0.067	13.5
TkA01G562410	`PF02847`	MA3	319	424	1.4e-28	99.8
TkA01G562410	`PF02854`	MIF4G	357	396	7.1e-15	56.0
TkA01G562410	`PF25504`	HEAT_5MP1_2	360	503	0.067	13.5

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.

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