LXL04_009166 | RubberDandelionOmics

Gene overview

LXL04_009166

Reference: OH-1004 Chr: Chr02 Coordinates: 119435650-119436991 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

621 bp · LXL04_009166|LXL04_009166|OH1004|cDNA

ATGATGGAGATAATGTCGAGCTTCGATCACGATAATCGGAATCCAAGGGTTTTGATTCACAACGCGCTCCTTGTTCGAGGCTTATCGTTTTCGTATCACAAGCTTCCTAAACAACTTCTCAAGCTATCTGTTCTGAAATTAGATGGTTCTTCCTTTGGCGTCGAGGTTTCTATGAATGCTACCGTAGCAGATCTTAAACTTGTATTAGAGAAGTTTTTTCGCTTCTTGCCTAAGGAGGAGAGACGGATTGTTTCCTGGTC...

CDS

Download CDS FASTA

621 bp · LXL04_009166|LXL04_009166|OH1004|CDS

ATGATGGAGATAATGTCGAGCTTCGATCACGATAATCGGAATCCAAGGGTTTTGATTCACAACGCGCTCCTTGTTCGAGGCTTATCGTTTTCGTATCACAAGCTTCCTAAACAACTTCTCAAGCTATCTGTTCTGAAATTAGATGGTTCTTCCTTTGGCGTCGAGGTTTCTATGAATGCTACCGTAGCAGATCTTAAACTTGTATTAGAGAAGTTTTTTCGCTTCTTGCCTAAGGAGGAGAGACGGATTGTTTCCTGGTC...

Protein

Download Protein FASTA

206 aa · LXL04_009166|LXL04_009166|OH1004|PROTEIN

MMEIMSSFDHDNRNPRVLIHNALLVRGLSFSYHKLPKQLLKLSVLKLDGSSFGVEVSMNATVADLKLVLEKFFRFLPKEERRIVSWSHVWGHFCLCYKGKKLLNDKAYIRRLGIKDGDQIKFVRHVTINYRPARQQMIKNQSDDELKQCSMYELLSSYDEDGDLNDVRNCESVENEQVESVFIHGSKVANFLKGWFSYRKFRNGIV

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_009166`
Source version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_009166

Location Chr02:119435650-119436991 (+)

Description Similar to SNRNP25: U11/U12 small nuclear ribonucleoprotein 25 kDa protein

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g07860`	U11/U12 small nuclear ribonucleoprotein 25 kDa protein.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_009166 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000388 spliceosome conformational change to release U4 (or U4atac) and U1 (or U11) Biological Process

GO:0000398 mRNA splicing, via spliceosome Biological Process

GO:0008380 RNA splicing Biological Process

GO:0005634 nucleus Cellular Component

GO:0005654 nucleoplasm Cellular Component

GO:0005681 spliceosomal complex Cellular Component

GO:0005689 U12-type spliceosomal complex Cellular Component

GO:0005829 cytosol Cellular Component

GO:0034693 U11/U12 snRNP Cellular Component

GO:0045171 intercellular bridge Cellular Component

GO:0071016 U12-type precatalytic spliceosome Cellular Component

KEGG gene cross-reference

ath:AT3G07860

bta:513526

hsa:79622

mmu:78372

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.

Nucleus0.384

Rank 1 · LXL04_009166 · OH-1004

Cytoplasm0.321

Rank 2 · LXL04_009166 · OH-1004

Cell membrane0.298

Rank 3 · LXL04_009166 · OH-1004

Endoplasmic reticulum0.102

Rank 4 · LXL04_009166 · OH-1004

Lysosome / Vacuole0.066

Rank 5 · LXL04_009166 · 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.

PF18036.9Ubiquitin_430-127 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_009166	`PF18036.9`	Ubiquitin_4	30	127	1.2e-28	99.9

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

Protein	Organism	Description	Identity	Database	Confidence
`Q84WS8`	Arabidopsis thaliana	U11/U12 small nuclear ribonucleoprotein 25 kDa protein	41.573%	Swiss-Prot	weak database homology

JBrowse

View in Genome Browser

Gene Card