TkA07G438800 | RubberDandelionOmics

Gene overview

TkA07G438800

Reference: TK1151 Chr: Chr07 Coordinates: 111121311-111130437 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2688 bp · TkA07G438800|TK1151|cDNA

CATTATATCTAATTGTCCAGCTGTTATATTTCTAAATATGACTATTTTACCCTCAAAACTGAACTAGTAAAAGTATATATTATAGCGGACCAATAGTCAAGACCTCACACTCGCAACTAAAAACCTAGTATATTAAATGAAATTAAAGGTAACCTAATATCTCTACTCGATTTCTTGTTTTTCCTTTTTGAGTTCGAGGTTTCAATTTTCATCTCGGATATAAATGAAATTAAAGGTAACTTAGTATATTAAAAAGATTT...

CDS

Download CDS FASTA

591 bp · TkA07G438800|TK1151|CDS

ATGTATTCTTTGATCCCTTTCTCCGGGTTGTGGTTAGGCCTTTTCAATAAACGATACAAAATTACAATTGCAGGCTTTGATGTCAAGGTAGTGAGTCATTCTTTGTATGAATATGATGATGCGCCCAATGAATCCACCTCCACCTGCACCTGCACCATGGGTCCCACCATTGCCCCCAATGACAAGTGGCTTTTGGAACGCTACAAATGTTCAAAGTTCCTTAAAGGAATTACAGAACACCATCGATCTTGCAGAAGCTA...

Protein

Download Protein FASTA

196 aa · TkA07G438800|TK1151|PROTEIN

MYSLIPFSGLWLGLFNKRYKITIAGFDVKVVSHSLYEYDDAPNESTSTCTCTMGPTIAPNDKWLLERYKCSKFLKGITEHHRSCRSYEREQFDQADREADEWRAREIANEVAKQRVEKMKEIAKQKAKEERKRLESELELVLIVEKLQELRSIRIQKLTKQGHFLPEEDNKFLERIRVAVEEEERQLMAAADTQCC

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	`TkA07G438800`
TK1151 ID	TkA07G438800
OH-1004 ID	LXL04_023816
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	54.300
Protein coverage (%)	TK1151 84.694 / OH-1004 66.581 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 TkA07G438800

Location Chr07:111121311-111130437 (-)

Description Similar to SNRNP59: U11/U12 small nuclear ribonucleoprotein 59 kDa protein

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g46200`	U11/U12 small nuclear ribonucleoprotein 59 kDa protein.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

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Functional annotation source: OH1004 · LXL04_023816 · 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:0008380 RNA splicing Biological Process

GO:0005689 U12-type spliceosomal complex Cellular Component

GO:0005737 cytoplasm Cellular Component

KEGG gene cross-reference

ath:AT2G46200

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.

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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.

Nucleus0.489

Rank 1 · TkA07G438800 · TK1151

Cytoplasm0.382

Rank 2 · TkA07G438800 · TK1151

Mitochondrion0.107

Rank 3 · TkA07G438800 · TK1151

Cell membrane0.071

Rank 4 · TkA07G438800 · TK1151

Endoplasmic reticulum0.039

Rank 5 · TkA07G438800 · 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.

PF24214Phage_H_T_join_222-61 aa

PF16524RisS_PPD72-125 aa

PF16021PDCD783-175 aa

PF28206Vpar_1526104-157 aa

PF16524RisS_PPD142-183 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA07G438800	`PF24214`	Phage_H_T_join_2	22	61	0.2	12.1
TkA07G438800	`PF16524`	RisS_PPD	72	125	0.069	14.3
TkA07G438800	`PF16021`	PDCD7	83	175	0.0027	17.7
TkA07G438800	`PF28206`	Vpar_1526	104	157	0.1	12.9
TkA07G438800	`PF16524`	RisS_PPD	142	183	0.069	14.3

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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Protein	Organism	Description	Identity	Database	Confidence
`Q8VYD3`	Arabidopsis thaliana	sp\|Q8VYD3\|U1159_ARATH U11/U12 small nuclear ribonucleoprotein 59 kDa protein	42.800%	Swiss-Prot	Medium

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