TkA03G188330 | RubberDandelionOmics

Gene overview

TkA03G188330

Reference: TK1151 Chr: Chr03 Coordinates: 47411122-47415087 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1782 bp · TkA03G188330|TK1151|cDNA

ATGCCTAGCCCGACGGACAGGTACATCCTCAAGAAACACGAACAGTCGGTTGGGTGCCCCGAGTCTCCTCGAGCCATGACACATAGCTTAGTTCTCACCGCCCTCTATGAGATAGGACATTTTAAGAGTACTTGTACCACTCTATCATTTGTGATTCGTATTTTAACGACGAAATACGCGATCAACAAAATTAACTCTCAGAATGAAAATGAATATGATATGAATTATCCACCTCTCATAAAATGGACAAGGGATCATCC...

CDS

Download CDS FASTA

1782 bp · TkA03G188330|TK1151|CDS

ATGCCTAGCCCGACGGACAGGTACATCCTCAAGAAACACGAACAGTCGGTTGGGTGCCCCGAGTCTCCTCGAGCCATGACACATAGCTTAGTTCTCACCGCCCTCTATGAGATAGGACATTTTAAGAGTACTTGTACCACTCTATCATTTGTGATTCGTATTTTAACGACGAAATACGCGATCAACAAAATTAACTCTCAGAATGAAAATGAATATGATATGAATTATCCACCTCTCATAAAATGGACAAGGGATCATCC...

Protein

Download Protein FASTA

593 aa · TkA03G188330|TK1151|PROTEIN

MPSPTDRYILKKHEQSVGCPESPRAMTHSLVLTALYEIGHFKSTCTTLSFVIRILTTKYAINKINSQNENEYDMNYPPLIKWTRDHPQRQIIGSPLQGIQTRAQRKEREAILNKNLLFCQYNAFLSKIEPKNVKIALDHSDWVEAMQAELNEFERNKVWRLIPTPPNVSVVGLKWVFRNKVDKEGNVVRNKARLVVKGYCQQEGIDYEETFAPVARLEAVRIFLVYAASKNFQVYQMDVKCAFLNGELEETVYVEQPPGF...

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	`TkA03G188330`
TK1151 ID	TkA03G188330
OH-1004 ID	LXL04_038729
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	86.600
Protein coverage (%)	TK1151 89.545 / OH-1004 28.942 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 TkA03G188330

Location Chr03:47411122-47415087 (+)

Description Similar to GIP: Copia protein

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

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Functional annotation source: OH1004 · LXL04_038729 · 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:0006281 DNA repair Biological Process

GO:0006310 DNA recombination Biological Process

GO:0006508 proteolysis Biological Process

GO:0015074 DNA integration Biological Process

GO:0071897 DNA biosynthetic process Biological Process

GO:0042575 DNA polymerase complex Cellular Component

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:0005524 ATP binding 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.

Cytoplasm0.654

Rank 1 · TkA03G188330 · TK1151

Nucleus0.358

Rank 2 · TkA03G188330 · TK1151

Mitochondrion0.095

Rank 3 · TkA03G188330 · TK1151

Peroxisome0.040

Rank 4 · TkA03G188330 · TK1151

Endoplasmic reticulum0.036

Rank 5 · TkA03G188330 · 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.

PF07727RVT_2156-398 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA03G188330	`PF07727`	RVT_2	156	398	1e-76	258.5

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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Protein	Organism	Description	Identity	Database	Confidence
`Q9ZT94`	Arabidopsis thaliana	sp\|Q9ZT94\|POLR2_ARATH Retrovirus-related Pol polyprotein from transposon RE2	33.100%	Swiss-Prot	Medium
`Q94HW2`	Arabidopsis thaliana	sp\|Q94HW2\|POLR1_ARATH Retrovirus-related Pol polyprotein from transposon RE1	32.700%	Swiss-Prot	Medium

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