TkA05G043420 | RubberDandelionOmics

Gene overview

TkA05G043420

Reference: TK1151 Chr: Chr05 Coordinates: 11542649-11545660 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2223 bp · TkA05G043420|TK1151|cDNA

TTTTGATCGACATCTTCTTACAAAGTTCAGGGATTTAGCATTTCTTTGTAATAAAACCAAACGCATCTCTCTCTCTCTACTAAAAGATCGAATTTGGAGACGGAAACAGACAATCAGCCATCCCCACCACTACCTCCGCCATTTTCTTCAATGCTCCGTCGTCCTTTGATGATCGGCATATATTTGTTCGTAAAACGGCCGGCCGGTTCATGTTTTCCCGATAGCGTTATGCAATTTCCAACATTCTCATTGGTATCTCC...

CDS

Download CDS FASTA

1407 bp · TkA05G043420|TK1151|CDS

ATGGAATCTTCTGGTGTTAATTCAGACGCGCACAGAGGTTCGTTGGCAAGCACCAGTACGAGTGATCATCAGTATCATCATCCACGAAGGCAAAATGGAAACAACCCTTTCTCTGCGTCAAATTTCTTTCGCTCACCTGTATGCACTTTCTTGGAGTATATGGGAGTTTTACCAACCAGTAATTCCGATTCATCAGTCAATTTGATCAATAGTGGACGCACTTGGAATGAATCTCATCCATCCGTGGATGATTCAAGTGA...

Protein

Download Protein FASTA

468 aa · TkA05G043420|TK1151|PROTEIN

MESSGVNSDAHRGSLASTSTSDHQYHHPRRQNGNNPFSASNFFRSPVCTFLEYMGVLPTSNSDSSVNLINSGRTWNESHPSVDDSSEVSIRIAGSREQDINQSSTAGQIREGTATQSESSVEVQSISRAVSAASMDTQGDSRSEHGGGVSGNGDVEAADGVGVNNSRDSTYQRYDLQQLARMAEQILPFSLLLSVVFIRQHFEGIPDFLVTIWIAAFMFKSNDILRKQTALKGERKMAVLVAISVLFTLHVAVVYWWCRQ...

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	`TkA05G043420`
TK1151 ID	TkA05G043420
OH-1004 ID	LXL04_019332
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	96.200
Protein coverage (%)	TK1151 100.000 / OH-1004 90.548 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	`TkA05G043420`
Location	Chr05:11542649-11545660 (+)
Description	Similar to RNFT2: RING finger and transmembrane domain-containing protein 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_019332` · 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:0016567 protein ubiquitination Biological Process GO:1904294 positive regulation of ERAD pathway Biological Process GO:0005783 endoplasmic reticulum Cellular Component GO:0005789 endoplasmic reticulum membrane Cellular Component GO:0016020 membrane Cellular Component GO:0008270 zinc ion binding Molecular Function GO:0061630 ubiquitin protein ligase activity Molecular Function
KEGG gene cross-reference	hsa:84900 mmu:269695 pon:100174460 xla:414607 xtr:549103 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.

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.

Endoplasmic reticulum0.566

Rank 1 · TkA05G043420 · TK1151

Golgi apparatus0.248

Rank 2 · TkA05G043420 · TK1151

Nucleus0.156

Rank 3 · TkA05G043420 · TK1151

Cytoplasm0.142

Rank 4 · TkA05G043420 · TK1151

Cell membrane0.079

Rank 5 · TkA05G043420 · 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.

PF03706LPG_synthase_TM186-257 aa

PF14102Caps_synth_CapC207-256 aa

PF30983NRG4_TM209-219 aa

PF14835zf-RING_6221-256 aa

PF30983NRG4_TM237-260 aa

PF03706LPG_synthase_TM281-345 aa

PF07295DUF1451365-438 aa

PF12773DZR399-444 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA05G043420	`PF03706`	LPG_synthase_TM	186	257	0.31	11.2
TkA05G043420	`PF14102`	Caps_synth_CapC	207	256	0.016	16.4
TkA05G043420	`PF30983`	NRG4_TM	209	219	0.27	11.5
TkA05G043420	`PF14835`	zf-RING_6	221	256	0.00019	21.9
TkA05G043420	`PF30983`	NRG4_TM	237	260	0.27	11.5
TkA05G043420	`PF03706`	LPG_synthase_TM	281	345	0.31	11.2
TkA05G043420	`PF07295`	DUF1451	365	438	0.0036	18.2
TkA05G043420	`PF12773`	DZR	399	444	1.0	10.3
TkA05G043420	`PF26037`	zf-RING_DCST1_C	401	412	1.9	9.3
TkA05G043420	`PF12678`	zf-rbx1	404	445	7.1e-07	30.1
TkA05G043420	`PF13920`	zf-C3HC4_3	405	449	1.2e-09	38.6
TkA05G043420	`PF17120`	zf-RING_16	406	442	0.018	15.4
TkA05G043420	`PF24921`	RING_XB3-XBAT31	406	446	0.026	15.3
TkA05G043420	`PF11789`	zf-Nse	406	444	0.25	11.9
TkA05G043420	`PF18912`	DZR_2	406	444	5.1	7.7
TkA05G043420	`PF13639`	zf-RING_2	407	445	1.1e-10	42.2

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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