TkA01G004890 | RubberDandelionOmics

Gene overview

TkA01G004890

Reference: TK1151 Chr: Chr01 Coordinates: 1268482-1271520 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1188 bp · TkA01G004890|TK1151|cDNA

ATGTATAAGCATTATCAAGATGCTCTTGCTTTATGTAGAGATCTATATACAATTGAATTTCAAAAACGCGGGCTGCCCCATTGCCACACCCTTATCTGGGTCAATTCAGTTTCAAAAATTTGTAGTGCATCTGATGTAGATAAATTCATCTCGGCTGAAATTCCTAATTCATTAACGAATCCTGAGTTATTTGACGTTGGTGGCACTGGTAAAACATTCTTATGGAAGACAATCTTAGCTTATTTTCGATCCAAACCAAA...

CDS

Download CDS FASTA

1188 bp · TkA01G004890|TK1151|CDS

ATGTATAAGCATTATCAAGATGCTCTTGCTTTATGTAGAGATCTATATACAATTGAATTTCAAAAACGCGGGCTGCCCCATTGCCACACCCTTATCTGGGTCAATTCAGTTTCAAAAATTTGTAGTGCATCTGATGTAGATAAATTCATCTCGGCTGAAATTCCTAATTCATTAACGAATCCTGAGTTATTTGACGTTGGTGGCACTGGTAAAACATTCTTATGGAAGACAATCTTAGCTTATTTTCGATCCAAACCAAA...

Protein

Download Protein FASTA

395 aa · TkA01G004890|TK1151|PROTEIN

MYKHYQDALALCRDLYTIEFQKRGLPHCHTLIWVNSVSKICSASDVDKFISAEIPNSLTNPELFDVGGTGKTFLWKTILAYFRSKPKIILAVAASGIASLLLPSGRTAHLRFKIPIDLSELSTCNIKKKQTLTFRDLLDNRSLPFGGMTMLLGGDFCQTLPVKPKKPPSEIIQSTLPNSKLWRHFIVCPLSYNMRLSSSGLSDAETHLRQNFANWLLDVGNGSVGTLNSEDDPNVFNVDIPRSLLLPKVNPTLADLIGFV...

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	`TkA01G004890`
TK1151 ID	TkA01G004890
OH-1004 ID	LXL04_012676
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	54.100
Protein coverage (%)	TK1151 83.291 / OH-1004 33.826 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

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · TK1151

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID	`TkA01G004890`
Location	Chr01:1268482-1271520 (+)
Description	Similar to pif1: ATP-dependent DNA helicase PIF1
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_012676` · 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:0000723 telomere maintenance Biological Process GO:0001117 protein-DNA-RNA complex disassembly Biological Process GO:0006281 DNA repair Biological Process GO:0006310 DNA recombination Biological Process GO:0007004 telomere maintenance via telomerase Biological Process GO:0032211 negative regulation of telomere maintenance via telomerase Biological Process GO:0000781 chromosome, telomeric region Cellular Component GO:0005634 nucleus Cellular Component GO:0005654 nucleoplasm Cellular Component GO:0005739 mitochondrion Cellular Component GO:0042645 mitochondrial nucleoid Cellular Component GO:0000287 magnesium ion binding Molecular Function
KEGG gene cross-reference	hsa:80119 mmu:208084 rno:367645 xla:734585 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.

Nucleus0.545

Rank 1 · TkA01G004890 · TK1151

Cytoplasm0.498

Rank 2 · TkA01G004890 · TK1151

Mitochondrion0.048

Rank 3 · TkA01G004890 · TK1151

Endoplasmic reticulum0.030

Rank 4 · TkA01G004890 · TK1151

Peroxisome0.028

Rank 5 · TkA01G004890 · 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.

PF23343REP_ORF2-G2P10-42 aa

PF14214Helitron_like_N15-32 aa

PF20199RepSA17-35 aa

PF05970PIF166-132 aa

PF05970PIF1133-227 aa

PF21530Pif1_2B_dom291-336 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA01G004890	`PF23343`	REP_ORF2-G2P	10	42	0.0078	17.2
TkA01G004890	`PF14214`	Helitron_like_N	15	32	7.6e-05	23.7
TkA01G004890	`PF20199`	RepSA	17	35	0.071	13.0
TkA01G004890	`PF05970`	PIF1	66	132	4.8e-49	167.6
TkA01G004890	`PF05970`	PIF1	133	227	4.8e-49	167.6
TkA01G004890	`PF21530`	Pif1_2B_dom	291	336	6.9e-17	61.6

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

No result was found for this query.

JBrowse

View in Genome Browser

Gene Card