LXL04_038096 | RubberDandelionOmics

Gene overview

LXL04_038096

Reference: OH-1004 Chr: Chr09 Coordinates: 31181909-31185184 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1470 bp · LXL04_038096|LXL04_038096|OH1004|cDNA

ATGCTTGAGGATCCAAGTTCACATTTGTTTCTAACTTCAAAGTTCAAACCCTACGCTACGCCTCTCTTCTCTCTCACGCAAAACGGCAAAAAGTGTAAAACCCTAAATCGACCTGTGAGCTATAAGCACCGACAGGCGACAACCGAGCTTGAAGCGCCGCAGCTTCTCCGTCTCCTACAAGCCGGCGTCCCTGAGATTGAAGAGCTCCTGCCTCGATTTTCATTATGCAAGCTTGAAGACCCACTGCTTCGATTCAGCAA...

CDS

Download CDS FASTA

1470 bp · LXL04_038096|LXL04_038096|OH1004|CDS

ATGCTTGAGGATCCAAGTTCACATTTGTTTCTAACTTCAAAGTTCAAACCCTACGCTACGCCTCTCTTCTCTCTCACGCAAAACGGCAAAAAGTGTAAAACCCTAAATCGACCTGTGAGCTATAAGCACCGACAGGCGACAACCGAGCTTGAAGCGCCGCAGCTTCTCCGTCTCCTACAAGCCGGCGTCCCTGAGATTGAAGAGCTCCTGCCTCGATTTTCATTATGCAAGCTTGAAGACCCACTGCTTCGATTCAGCAA...

Protein

Download Protein FASTA

489 aa · LXL04_038096|LXL04_038096|OH1004|PROTEIN

MLEDPSSHLFLTSKFKPYATPLFSLTQNGKKCKTLNRPVSYKHRQATTELEAPQLLRLLQAGVPEIEELLPRFSLCKLEDPLLRFSNSQLLFEALSTEPTGSNEEEGTKTIKTSTLHSRRSITVLQHRRRWLRTLGILVGVKIKRDQEDPEKYLVQFTYDANDDGIIILHFGSKRGDGSSDGLTKEDLIPSIKLHIQKGFGQKFIQESGTGIDLSTYKVDVQEGFFDGREVAVKRIVKEHLHVALKEMENLKLSDQHRNI...

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_038096`
TK1151 ID	TkA04G388530
OH-1004 ID	LXL04_038096
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	75.900
Protein coverage (%)	TK1151 53.906 / OH-1004 54.397 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_038096

Location Chr09:31181909-31185184 (-)

Description Similar to IRE1A: Serine/threonine-protein kinase/endoribonuclease IRE1a

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g17520`	Senses unfolded proteins in the lumen of the endoplasmic reticulum via its N-terminal domain which leads to enzyme auto- activation.	Characterization of two homologs of Ire1p, a kinase/endoribonuclease in yeast, in Arabidopsis thaliana.2002 · DOI: 10.1016/s0167-4781(02)00237-3 AtIRE1A/AtIRE1B and AGB1 independently control two essential unfolded protein response pathways in Arabidopsis.2012 · DOI: 10.1111/j.1365-313x.2011.04788.x Arabidopsis IRE1 catalyses unconventional splicing of bZIP60 mRNA to produce the active transcription factor.2011 · DOI: 10.1038/srep00029 IRE1/bZIP60-mediated unfolded protein response plays distinct roles in plant immunity and abiotic stress responses.2012 · DOI: 10.1371/journal.pone.0031944
`At5g24360`	Senses unfolded proteins in the lumen of the endoplasmic reticulum via its N-terminal domain which leads to enzyme auto- activation.	Heat induces the splicing by IRE1 of a mRNA encoding a transcription factor involved in the unfolded protein response in Arabidopsis.2011 · DOI: 10.1073/pnas.1102117108 AtIRE1A/AtIRE1B and AGB1 independently control two essential unfolded protein response pathways in Arabidopsis.2012 · DOI: 10.1111/j.1365-313x.2011.04788.x Arabidopsis IRE1 catalyses unconventional splicing of bZIP60 mRNA to produce the active transcription factor.2011 · DOI: 10.1038/srep00029 IRE1/bZIP60-mediated unfolded protein response plays distinct roles in plant immunity and abiotic stress responses.2012 · DOI: 10.1371/journal.pone.0031944 Alteration of the bZIP60/IRE1 pathway affects plant response to ER stress in Arabidopsis thaliana.2012 · DOI: 10.1371/journal.pone.0039023 Degradation of the endoplasmic reticulum by autophagy during endoplasmic reticulum stress in Arabidopsis.2012 · DOI: 10.1105/tpc.112.101535
`At3g11870`	Inactive serine/threonine-protein kinase/endoribonuclease IRE1-like.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os07g0471000`	Involved in endoplasmic reticulum (ER) stress response.	Signal transduction by IRE1-mediated splicing of bZIP50 and other stress sensors in the endoplasmic reticulum stress response of rice.2012 · DOI: 10.1111/j.1365-313x.2011.04844.x Conservation of IRE1-regulated bZIP74 mRNA unconventional splicing in rice (Oryza sativa L.) involved in ER stress responses.2012 · DOI: 10.1093/mp/ssr115

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_038096 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000394 RNA splicing, via endonucleolytic cleavage and ligation Biological Process

GO:0002376 immune system process Biological Process

GO:0006351 DNA-templated transcription Biological Process

GO:0006397 mRNA processing Biological Process

GO:0006914 autophagy Biological Process

GO:0006986 response to unfolded protein Biological Process

GO:0008380 RNA splicing Biological Process

GO:0009751 response to salicylic acid Biological Process

GO:0030968 endoplasmic reticulum unfolded protein response Biological Process

GO:0034263 positive regulation of autophagy in response to ER overload Biological Process

GO:0034976 response to endoplasmic reticulum stress Biological Process

GO:0035966 response to topologically incorrect protein Biological Process

KEGG gene cross-reference

ath:AT2G17520

ath:AT3G11870

ath:AT5G24360

cel:CELE_C41C4.4

dosa:Os07g0471000

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.

Cytoplasm0.442

Rank 1 · LXL04_038096 · OH-1004

Nucleus0.403

Rank 2 · LXL04_038096 · OH-1004

Mitochondrion0.116

Rank 3 · LXL04_038096 · OH-1004

Cell membrane0.109

Rank 4 · LXL04_038096 · OH-1004

Endoplasmic reticulum0.082

Rank 5 · LXL04_038096 · 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.

PF26192.1RNF157-like_N141-220 aa

PF00069.32Pkinase227-429 aa

PF07714.24PK_Tyr_Ser-Thr228-407 aa

PF17667.8Pkinase_fungal313-400 aa

PF08079.18Ribosomal_L30_N433-477 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_038096	`PF26192.1`	RNF157-like_N	141	220	7.6e-18	66.0
LXL04_038096	`PF00069.32`	Pkinase	227	429	5.9e-32	111.8
LXL04_038096	`PF07714.24`	PK_Tyr_Ser-Thr	228	407	1.5e-23	84.2
LXL04_038096	`PF17667.8`	Pkinase_fungal	313	400	5.3e-06	26.1
LXL04_038096	`PF08079.18`	Ribosomal_L30_N	433	477	4.7e-08	34.0

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
`Q9C5S2`	Arabidopsis thaliana	Serine/threonine-protein kinase/endoribonuclease IRE1a	50.237%	Swiss-Prot	weak database homology
`Q93VJ2`	Arabidopsis thaliana	Serine/threonine-protein kinase/endoribonuclease IRE1b	53.883%	Swiss-Prot	weak database homology
`Q9SF12`	Arabidopsis thaliana	Inactive serine/threonine-protein kinase/endoribonuclease IRE1-like	40.094%	Swiss-Prot	weak database homology
`Q7XIT1`	Oryza sativa subsp. japonica	Serine/threonine-protein kinase/endoribonuclease IRE1	57.672%	Swiss-Prot	weak database homology

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