TkA01G118180 | RubberDandelionOmics

Gene overview

TkA01G118180

Reference: TK1151 Chr: Chr01 Coordinates: 29952710-29953831 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1122 bp · TkA01G118180|TK1151|cDNA

ATGGATTCCAGTACACAGAACGTAGAAATCTTCATTCAAGCCCCAGATCTTCAAATCCCAACTCGAGCGCTAACCCTAACCCCTAATTCCACCGTCCGCAATCTAAAACTATCTTTCCTTTCCCAAATTAATTCAATCCATCAAACGCTTGCATCCTCCAGTTTCTTCACCTTGAACGGTCGCCTTCTCTCGGATTCCGATACCCTTGAAAACTCCGGAGTCACAAGCTTATCGACTCTAAGCCTTAGATTTCGTCTCTC...

CDS

Download CDS FASTA

1122 bp · TkA01G118180|TK1151|CDS

ATGGATTCCAGTACACAGAACGTAGAAATCTTCATTCAAGCCCCAGATCTTCAAATCCCAACTCGAGCGCTAACCCTAACCCCTAATTCCACCGTCCGCAATCTAAAACTATCTTTCCTTTCCCAAATTAATTCAATCCATCAAACGCTTGCATCCTCCAGTTTCTTCACCTTGAACGGTCGCCTTCTCTCGGATTCCGATACCCTTGAAAACTCCGGAGTCACAAGCTTATCGACTCTAAGCCTTAGATTTCGTCTCTC...

Protein

Download Protein FASTA

373 aa · TkA01G118180|TK1151|PROTEIN

MDSSTQNVEIFIQAPDLQIPTRALTLTPNSTVRNLKLSFLSQINSIHQTLASSSFFTLNGRLLSDSDTLENSGVTSLSTLSLRFRLSGGGGDGGATGAESRDCYLNMYAEKKPDKCDPNEQRLSKWLNCALSNEPLKHPIVVDHLGNLFNKQALVEALLTKKLPKAFSHIKGLKDMIAVELASIPGSDSPSSSDVKFQCPITSMEFNGKYKFYALKTCGHVLSSKALKEVKSSTCHVCHKDFAESDKLIINGNEEEVIVL...

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	`TkA01G118180`
TK1151 ID	TkA01G118180
OH-1004 ID	LXL04_004725
Relationship / confidence	Rbh Sequence Supported / Probable
Protein identity (%)	93.800
Protein coverage (%)	TK1151 100.000 / OH-1004 100.000 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	`TkA01G118180`
Location	Chr01:29952710-29953831 (+)
Description	Similar to RTF2: Replication termination factor 2
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_004725` · 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:0006274 DNA replication termination Biological Process GO:0072711 cellular response to hydroxyurea Biological Process GO:0097752 regulation of DNA stability Biological Process GO:0005634 nucleus Cellular Component GO:0005654 nucleoplasm Cellular Component GO:0005657 replication fork Cellular Component GO:0005730 nucleolus Cellular Component GO:0003677 DNA binding Molecular Function
KEGG gene cross-reference	bta:513536 hsa:51507 pon:100172821 ssc:100126294 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.

Nucleus0.966

Rank 1 · TkA01G118180 · TK1151

Cytoplasm0.117

Rank 2 · TkA01G118180 · TK1151

Cell membrane0.014

Rank 3 · TkA01G118180 · TK1151

Mitochondrion0.011

Rank 4 · TkA01G118180 · TK1151

Endoplasmic reticulum0.008

Rank 5 · TkA01G118180 · 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.

PF00240ubiquitin24-86 aa

PF04641Rtf289-357 aa

PF11789zf-Nse127-160 aa

PF11789zf-Nse193-230 aa

PF13445zf-RING_UBOX199-235 aa

PF14634zf-RING_5199-240 aa

PF14447Prok-RING_4214-245 aa

PF10367zf-Vps39_C232-245 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA01G118180	`PF00240`	ubiquitin	24	86	0.00095	19.6
TkA01G118180	`PF04641`	Rtf2	89	357	9.1e-74	248.8
TkA01G118180	`PF11789`	zf-Nse	127	160	0.0014	19.1
TkA01G118180	`PF11789`	zf-Nse	193	230	0.0014	19.1
TkA01G118180	`PF13445`	zf-RING_UBOX	199	235	0.009	16.7
TkA01G118180	`PF14634`	zf-RING_5	199	240	0.24	12.1
TkA01G118180	`PF14447`	Prok-RING_4	214	245	0.029	15.0
TkA01G118180	`PF10367`	zf-Vps39_C	232	245	0.064	13.6
TkA01G118180	`PF13445`	zf-RING_UBOX	235	242	0.009	16.7

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