LXL04_002272 | RubberDandelionOmics

Gene overview

LXL04_002272

Reference: OH-1004 Chr: Chr01 Coordinates: 45007700-45010388 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1680 bp · LXL04_002272|LXL04_002272|OH1004|cDNA

ATGGGTTCGTCCAAGGTGCGGAACAACCACAAAGAAAAAGCAGTTCGTCGCAAAGAGGAAAAGGTCGAACAACCAGAACTACCAAAATATCGAGATAGAGCTAAGGAGCGCAGAGAAGATCAGAATCCTGATTACGAACCTTCAGAATTGGGTTCTTTTCATGCAGTTGCTCCTCCTGGAAATGTCGATCTTCTATCAGCAGAAGCCCAAAGGATATCAATCGAGAAGAGCAAGTATCTTGGAGGTGATGTTGAACACAC...

CDS

Download CDS FASTA

1680 bp · LXL04_002272|LXL04_002272|OH1004|CDS

ATGGGTTCGTCCAAGGTGCGGAACAACCACAAAGAAAAAGCAGTTCGTCGCAAAGAGGAAAAGGTCGAACAACCAGAACTACCAAAATATCGAGATAGAGCTAAGGAGCGCAGAGAAGATCAGAATCCTGATTACGAACCTTCAGAATTGGGTTCTTTTCATGCAGTTGCTCCTCCTGGAAATGTCGATCTTCTATCAGCAGAAGCCCAAAGGATATCAATCGAGAAGAGCAAGTATCTTGGAGGTGATGTTGAACACAC...

Protein

Download Protein FASTA

559 aa · LXL04_002272|LXL04_002272|OH1004|PROTEIN

MGSSKVRNNHKEKAVRRKEEKVEQPELPKYRDRAKERREDQNPDYEPSELGSFHAVAPPGNVDLLSAEAQRISIEKSKYLGGDVEHTHLVKGLDYALLNKVRSEIDKKPEAEDADDGKPRRSKEDLPVSFRTGNAKAVYQWIVKPQTSFKQNEMFLPGRMAFIFDMESGFSHDIPTTIHRSKADCPEPEEMVTVSVDGSVLDRIGKIMSYLRLGSSGKILKKKKKDKDAKGKLSSNYDVEKISKPEREFLPPPPPPRRNL...

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_002272`
TK1151 ID	TkA01G443930
OH-1004 ID	LXL04_002272
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	97.900
Protein coverage (%)	TK1151 100.000 / OH-1004 100.000 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

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_002272

Location Chr01:45007700-45010388 (+)

Description Similar to SMU2: Suppressor of mec-8 and unc-52 protein homolog 2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g26460`	Auxiliary spliceosomal protein involved in splicing of specific pre-mRNAs that affect multiple aspects of development.	Plant SMU-1 and SMU-2 homologues regulate pre-mRNA splicing and multiple aspects of development.2009 · DOI: 10.1104/pp.109.141705

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_002272 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000278 mitotic cell cycle Biological Process

GO:0000398 mRNA splicing, via spliceosome Biological Process

GO:0007094 mitotic spindle assembly checkpoint signaling Biological Process

GO:0008380 RNA splicing Biological Process

GO:0034501 protein localization to kinetochore Biological Process

GO:0000228 nuclear chromosome Cellular Component

GO:0000922 spindle pole Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005654 nucleoplasm Cellular Component

GO:0005694 chromosome Cellular Component

GO:0016607 nuclear speck Cellular Component

GO:0071005 U2-type precatalytic spliceosome Cellular Component

KEGG gene cross-reference

ath:AT2G26460

mmu:24010

rno:291659

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.

Nucleus0.962

Rank 1 · LXL04_002272 · OH-1004

Cytoplasm0.157

Rank 2 · LXL04_002272 · OH-1004

Cell membrane0.017

Rank 3 · LXL04_002272 · OH-1004

Mitochondrion0.015

Rank 4 · LXL04_002272 · OH-1004

Endoplasmic reticulum0.010

Rank 5 · LXL04_002272 · 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.

PF07808.19RED_N9-224 aa

PF07807.17RED_C434-540 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_002272	`PF07808.19`	RED_N	9	224	1.5e-80	270.9
LXL04_002272	`PF07807.17`	RED_C	434	540	4e-44	150.4

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
`O48713`	Arabidopsis thaliana	Suppressor of mec-8 and unc-52 protein homolog 2	65.614%	Swiss-Prot	strong database homology

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