LXL04_002992 | RubberDandelionOmics

Gene overview

LXL04_002992

Reference: OH-1004 Chr: Chr01 Coordinates: 64261246-64262760 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

868 bp · LXL04_002992|LXL04_002992|OH1004|cDNA

TACCCTATTCATTCCAAGTTCCCACCCAGAAATCTTGGTTGTTCGTCTCCGAAGAGAAGTCAAGGACCGTCGTAAGCGATCGTTAGTGCTATAGCAGCGCTCAACAATGGCGATGGCAACCACCATAAACAACGGAGACAAGGTTATGCTGCTAGAAGCTCCGCCATCTTCCCGGCCTTCTTGGTCCAGTAGTGCAGCGCAGATCGACGCATTGCCCTACATAGATGACGAATACGGCGACCCCAAAGTGAAAGCGGAAG...

CDS

Download CDS FASTA

762 bp · LXL04_002992|LXL04_002992|OH1004|CDS

ATGGCGATGGCAACCACCATAAACAACGGAGACAAGGTTATGCTGCTAGAAGCTCCGCCATCTTCCCGGCCTTCTTGGTCCAGTAGTGCAGCGCAGATCGACGCATTGCCCTACATAGATGACGAATACGGCGACCCCAAAGTGAAAGCGGAAGTTGACCGTTTAATTGAAGACGAGATGCGCCGCAGCTCTAAGAAACCCTCTGATTATCTCAAAGACCTCCCTCCTGTTGCCAAGTTTAATTTTGAGGATTATCCAAT...

Protein

Download Protein FASTA

253 aa · LXL04_002992|LXL04_002992|OH1004|PROTEIN

MAMATTINNGDKVMLLEAPPSSRPSWSSSAAQIDALPYIDDEYGDPKVKAEVDRLIEDEMRRSSKKPSDYLKDLPPVAKFNFEDYPMVAREYERVRSGKPMVPLDMSRYGLDIPPINKRNDESAWKQTLHKSQRLLHHQVIRLENLDLMSKYGADVWKQHNQRLEAFLSRMQAQAAELNEKIETVNRERKYHQQNTAYELNALSAQWKELCEKNIAIEAACLNIETYLEQLKAEAAERGWNLDINMENGSSLP

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_002992`
Source version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_002992

Location Chr01:64261246-64262760 (+)

Description Similar to MOS4: Pre-mRNA-splicing factor SPF27 homolog

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g18165`	Component of the MAC complex that probably regulates defense responses through transcriptional control and thereby is essential for plant innate immunity.	Regulation of plant innate immunity by three proteins in a complex conserved across the plant and animal kingdoms.2007 · DOI: 10.1101/gad.1559607

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_002992 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000375 RNA splicing, via transesterification reactions Biological Process

GO:0000380 alternative mRNA splicing, via spliceosome Biological Process

GO:0000398 mRNA splicing, via spliceosome Biological Process

GO:0006397 mRNA processing Biological Process

GO:0008380 RNA splicing Biological Process

GO:0030163 protein catabolic process Biological Process

GO:0042742 defense response to bacterium Biological Process

GO:0045087 innate immune response Biological Process

GO:0050832 defense response to fungus Biological Process

GO:0051225 spindle assembly Biological Process

GO:0097061 dendritic spine organization Biological Process

GO:0000974 Prp19 complex Cellular Component

KEGG gene cross-reference

ath:AT3G18165

dre:493614

hsa:10286

mmu:68183

xtr:394520

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.

Nucleus0.795

Rank 1 · LXL04_002992 · OH-1004

Cytoplasm0.256

Rank 2 · LXL04_002992 · OH-1004

Cell membrane0.030

Rank 3 · LXL04_002992 · OH-1004

Mitochondrion0.028

Rank 4 · LXL04_002992 · OH-1004

Endoplasmic reticulum0.015

Rank 5 · LXL04_002992 · 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.

PF05700.17BCAS232-237 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_002992	`PF05700.17`	BCAS2	32	237	5.4e-73	245.7

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

Protein	Organism	Description	Identity	Database	Confidence
`Q949S9`	Arabidopsis thaliana	Pre-mRNA-splicing factor SPF27 homolog	60.474%	Swiss-Prot	strong database homology

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