LXL04_002078 | RubberDandelionOmics

Gene overview

LXL04_002078

Reference: OH-1004 Chr: Chr01 Coordinates: 41404832-41407728 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

508 bp · LXL04_002078|LXL04_002078|OH1004|cDNA

ATGGCCAATCGAAAATCAACAATCACGATTTTATCACTTGGAGAcgaagaaggaagaagaaggtTTCATGGGGCATTTAGTGGAGGATTCTCTGCTAGTTACTACAATACCGTGGGATCTAAAGAGGGATGGACTCCACAATCATTTACATCGTCAAGGATGAACAGAGCTGAAATTAAGCAGCAAGATCTCTCTAACTTTTTGGATGACGATGAGAAAGCTGAACTGGAAGGCAATTCTTTGGGGACATCCATGAAGTT...

CDS

Download CDS FASTA

405 bp · LXL04_002078|LXL04_002078|OH1004|CDS

ATGGCCAATCGAAAATCAACAATCACGATTTTATCACTTGGAGACGAAGAAGGAAGAAGAAGGTTTCATGGGGCATTTAGTGGAGGATTCTCTGCTAGTTACTACAATACCGTGGGATCTAAAGAGGGATGGACTCCACAATCATTTACATCGTCAAGGATGAACAGAGCTGAAATTAAGCAGCAAGATCTCTCTAACTTTTTGGATGACGATGAGAAAGCTGAACTGGAAGGCAATTCTTTGGGGACATCCATGAAGTT...

Protein

Download Protein FASTA

134 aa · LXL04_002078|LXL04_002078|OH1004|PROTEIN

MANRKSTITILSLGDEEGRRRFHGAFSGGFSASYYNTVGSKEGWTPQSFTSSRMNRAEIKQQDLSNFLDDDEKAELEGNSLGTSMKFDTFGFTAADMARKHVEKEQNERPSAIPGPAPDEIVVPATDPIGCCWT

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	`LXL04_002078`
TK1151 ID	TkA01G484530
OH-1004 ID	LXL04_002078
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	100.000
Protein coverage (%)	TK1151 64.088 / OH-1004 86.567 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	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_002078

Location Chr01:41404832-41407728 (+)

Description Similar to TGH: G patch domain-containing protein TGH

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g23080`	Functions as a component of microRNA (miRNA) and small interfering RNA (siRNA) biogenesis.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`UniProt: B8B2G4`	Functions as a component of microRNA (miRNA) and small interfering RNA (siRNA) biogenesis.	No verified direct reference in this release
`Os06g0489200`	Functions as a component of microRNA (miRNA) and small interfering RNA (siRNA) biogenesis.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_002078 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006396 RNA processing Biological Process

GO:0006397 mRNA processing Biological Process

GO:0010087 phloem or xylem histogenesis Biological Process

GO:0030422 siRNA processing Biological Process

GO:0031047 regulatory ncRNA-mediated gene silencing Biological Process

GO:0035196 miRNA processing Biological Process

GO:0005634 nucleus Cellular Component

GO:0016607 nuclear speck Cellular Component

GO:0071013 catalytic step 2 spliceosome Cellular Component

GO:0003723 RNA binding Molecular Function

GO:0070878 primary miRNA binding Molecular Function

GO:0070883 pre-miRNA binding Molecular Function

KEGG gene cross-reference

ath:AT5G23080

bta:518738

dosa:Os06g0489200

mmu:67471

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.

Nucleus0.748

Rank 1 · LXL04_002078 · OH-1004

Cytoplasm0.426

Rank 2 · LXL04_002078 · OH-1004

Mitochondrion0.027

Rank 3 · LXL04_002078 · OH-1004

Cell membrane0.016

Rank 4 · LXL04_002078 · OH-1004

Endoplasmic reticulum0.015

Rank 5 · LXL04_002078 · OH-1004

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.

PF07713.19DUF160414-83 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_002078	`PF07713.19`	DUF1604	14	83	1e-30	106.0

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
`Q8GXN9`	Arabidopsis thaliana	G patch domain-containing protein TGH	71.795%	Swiss-Prot	strong database homology
`B8B2G4`	Oryza sativa subsp. indica	G patch domain-containing protein TGH homolog	69.231%	Swiss-Prot	strong database homology
`Q67VW6`	Oryza sativa subsp. japonica	G patch domain-containing protein TGH homolog	69.231%	Swiss-Prot	strong database homology

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