LXL04_030546 | RubberDandelionOmics

Gene overview

LXL04_030546

Reference: OH-1004 Chr: Chr06 Coordinates: 118370473-118376536 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2790 bp · LXL04_030546|LXL04_030546|OH1004|cDNA

ATGGAGAGTGACGAGGAGGATTTTGTGTTCTTCGGAACACCAATCGAGCGGGAAGAAGATATAACCAGCCGCAAGAAAAAATCGATTGCAGAAGCTTCCGGTCAGCTGCGAACCCTTGCTCCATGGAAACAAGAGgtaagagatgaagaaggaagaagaaggtTTCATGGGGCATTTAGTGGAGGATTTTCTGCTGGTTACTACAATACCGTGGGATCAAAAGAGGGATGGACTCCACAAACATTTACATCGTCAAGGAA...

CDS

Download CDS FASTA

2790 bp · LXL04_030546|LXL04_030546|OH1004|CDS

ATGGAGAGTGACGAGGAGGATTTTGTGTTCTTCGGAACACCAATCGAGCGGGAAGAAGATATAACCAGCCGCAAGAAAAAATCGATTGCAGAAGCTTCCGGTCAGCTGCGAACCCTTGCTCCATGGAAACAAGAGGTAAGAGATGAAGAAGGAAGAAGAAGGTTTCATGGGGCATTTAGTGGAGGATTTTCTGCTGGTTACTACAATACCGTGGGATCAAAAGAGGGATGGACTCCACAAACATTTACATCGTCAAGGAA...

Protein

Download Protein FASTA

929 aa · LXL04_030546|LXL04_030546|OH1004|PROTEIN

MESDEEDFVFFGTPIEREEDITSRKKKSIAEASGQLRTLAPWKQEVRDEEGRRRFHGAFSGGFSAGYYNTVGSKEGWTPQTFTSSRKNRAEFKQQDLSNFLDDDEKAELEGNSLGTSMKFDTFGFTAADMARKQVEKEQNERPSAIPGPAPDEIVVPATDPIGVKLMLKMGWRRGHSIKSSKTSSLYDARREARKAFLALSEDAKAHAAGPAHADMDDTMETSSELLTDGVSQLHKTTPVYVLNPKQDMYGLGYDPFKGA...

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_030546`
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_030546

Location Chr06:118370473-118376536 (+)

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
`Os06g0489200`	Functions as a component of microRNA (miRNA) and small interfering RNA (siRNA) biogenesis.	No verified direct reference in this release
`UniProt: B8B2G4`	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_030546 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000398 mRNA splicing, via spliceosome Biological Process

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:0005654 nucleoplasm Cellular Component

GO:0016607 nuclear speck Cellular Component

GO:0071013 catalytic step 2 spliceosome Cellular Component

GO:0003723 RNA binding Molecular Function

KEGG gene cross-reference

ath:AT5G23080

bta:518738

dosa:Os06g0489200

hsa:55094

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.

Nucleus0.934

Rank 1 · LXL04_030546 · OH-1004

Cytoplasm0.178

Rank 2 · LXL04_030546 · OH-1004

Mitochondrion0.021

Rank 3 · LXL04_030546 · OH-1004

Cell membrane0.019

Rank 4 · LXL04_030546 · OH-1004

Golgi apparatus0.008

Rank 5 · LXL04_030546 · OH-1004

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.

PF07713.19DUF160440-116 aa

PF01805.27Surp404-465 aa

PF26093.2HTH_TGH531-600 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_030546	`PF07713.19`	DUF1604	40	116	2.9e-34	117.4
LXL04_030546	`PF01805.27`	Surp	404	465	1.4e-15	57.4
LXL04_030546	`PF26093.2`	HTH_TGH	531	600	1.1e-18	67.7

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.

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Protein	Organism	Description	Identity	Database	Confidence
`Q8GXN9`	Arabidopsis thaliana	G patch domain-containing protein TGH	54.535%	Swiss-Prot	strong database homology
`Q67VW6`	Oryza sativa subsp. japonica	G patch domain-containing protein TGH homolog	45.888%	Swiss-Prot	moderate database homology
`B8B2G4`	Oryza sativa subsp. indica	G patch domain-containing protein TGH homolog	45.749%	Swiss-Prot	moderate database homology

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