TkA06G016540 | RubberDandelionOmics

Gene overview

TkA06G016540

Reference: TK1151 Chr: Chr06 Coordinates: 4472194-4472996 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

387 bp · TkA06G016540|TK1151|cDNA

ATGTCAACCAAAAGAGCTTATTGCTCAAACGAGTATATCTCGATCCTCCTCACAATCAACAACAATTTCCCCTTTTCTCTATTAGGGTTCTTCAATGGCCAACAAACAGATCACTGCGGCCACTCATCTCCCCACCAAACAGATCACAACTATCCGGTATGGAGAAAACAGGTCGAATCTACCCTTATCAGCCTCGCACTTGAAGGTTTCATCATGGGGACCTCCAAACAACCGCACATGCTGGTTAACGACAAGGAGGG...

CDS

Download CDS FASTA

387 bp · TkA06G016540|TK1151|CDS

ATGTCAACCAAAAGAGCTTATTGCTCAAACGAGTATATCTCGATCCTCCTCACAATCAACAACAATTTCCCCTTTTCTCTATTAGGGTTCTTCAATGGCCAACAAACAGATCACTGCGGCCACTCATCTCCCCACCAAACAGATCACAACTATCCGGTATGGAGAAAACAGGTCGAATCTACCCTTATCAGCCTCGCACTTGAAGGTTTCATCATGGGGACCTCCAAACAACCGCACATGCTGGTTAACGACAAGGAGGG...

Protein

Download Protein FASTA

128 aa · TkA06G016540|TK1151|PROTEIN

MSTKRAYCSNEYISILLTINNNFPFSLLGFFNGQQTDHCGHSSPHQTDHNYPVWRKQVESTLISLALEGFIMGTSKQPHMLVNDKEGKPTPNPEYLPWYRKDQMIFSAILGSCSDSIQPLISSASTAR

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	`TkA06G016540`
TK1151 ID	TkA06G016540
OH-1004 ID	LXL04_035582
Relationship / confidence	Non Reciprocal Best Hit / Complex relationship
Protein identity (%)	82.900
Protein coverage (%)	TK1151 64.062 / OH-1004 78.846 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 TkA06G016540

Location Chr06:4472194-4472996 (-)

Description Similar to RE1: Retrovirus-related Pol polyprotein from transposon RE1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g02960`	Retrovirus-related Pol polyprotein from transposon RE2.	No verified direct reference in this release
`UniProt: Q94HW2`	Retrovirus-related Pol polyprotein from transposon RE1.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_035582 · 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:0006310 DNA recombination Biological Process

GO:0006508 proteolysis Biological Process

GO:0015074 DNA integration Biological Process

GO:0003676 nucleic acid binding Molecular Function

GO:0003964 RNA-directed DNA polymerase activity Molecular Function

GO:0004190 aspartic-type endopeptidase activity Molecular Function

GO:0004519 endonuclease activity Molecular Function

GO:0008270 zinc ion binding Molecular Function

KEGG gene cross-reference No functional description available

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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.

Cytoplasm0.346

Rank 1 · TkA06G016540 · TK1151

Mitochondrion0.196

Rank 2 · TkA06G016540 · TK1151

Nucleus0.178

Rank 3 · TkA06G016540 · TK1151

Plastid0.165

Rank 4 · TkA06G016540 · TK1151

Peroxisome0.082

Rank 5 · TkA06G016540 · 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.

PF14244Retrotran_gag_328-35 aa

PF14244Retrotran_gag_344-78 aa

PF14223Retrotran_gag_260-128 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA06G016540	`PF14244`	Retrotran_gag_3	28	35	0.12	12.9
TkA06G016540	`PF14244`	Retrotran_gag_3	44	78	0.12	12.9
TkA06G016540	`PF14223`	Retrotran_gag_2	60	128	0.01	16.3

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q9ZT94`	Arabidopsis thaliana	sp\|Q9ZT94\|POLR2_ARATH Retrovirus-related Pol polyprotein from transposon RE2	39.500%	Swiss-Prot	Medium
`Q94HW2`	Arabidopsis thaliana	sp\|Q94HW2\|POLR1_ARATH Retrovirus-related Pol polyprotein from transposon RE1	38.300%	Swiss-Prot	Medium

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