LXL04_034255 | RubberDandelionOmics

Gene overview

LXL04_034255

Reference: OH-1004 Chr: Chr07 Coordinates: 93410203-93412866 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1077 bp · LXL04_034255|LXL04_034255|OH1004|cDNA

ATGAGCGGTATCAAGCTCTGGTGGATTGAGGGAGCATTCACTATTTTACTGCTACTAGTTCCTGGAAATCTAGGGTGGGGTAAAGAAGGACACTATGCAACTTGTAAAATTGCCGAGTCTGCAATCAAGTCAAGGACACACGGgaattatgataaaaaaatattagaTTGCTTGACGTTAGAGTACTTCGATTTGGGGAAGTCTTCCATTCGCATTGATCAAAATTTGTTTTTGGCAAATCAGTCATTCCTTAGTGAAGA...

CDS

Download CDS FASTA

1077 bp · LXL04_034255|LXL04_034255|OH1004|CDS

ATGAGCGGTATCAAGCTCTGGTGGATTGAGGGAGCATTCACTATTTTACTGCTACTAGTTCCTGGAAATCTAGGGTGGGGTAAAGAAGGACACTATGCAACTTGTAAAATTGCCGAGTCTGCAATCAAGTCAAGGACACACGGGAATTATGATAAAAAAATATTAGATTGCTTGACGTTAGAGTACTTCGATTTGGGGAAGTCTTCCATTCGCATTGATCAAAATTTGTTTTTGGCAAATCAGTCATTCCTTAGTGAAGA...

Protein

Download Protein FASTA

358 aa · LXL04_034255|LXL04_034255|OH1004|PROTEIN

MSGIKLWWIEGAFTILLLLVPGNLGWGKEGHYATCKIAESAIKSRTHGNYDKKILDCLTLEYFDLGKSSIRIDQNLFLANQSFLSEEALKAVKELVPESAEGDLASVCSWPDEIKHRYNWRWTSELHYVDTPDFRCNYDYCRDCHDSSGVKDNCVTGAIYNYTEQLVTGYNSSNSLVKYNLTEALMFLSHYIGDVHQPLHVSFTSDEGGNTITVRWYKRKTNLHHVWDSDIIESAMKTFYDKDLDVMISAIEKNITDKWS...

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_034255`
TK1151 ID	TkA08G410370
OH-1004 ID	LXL04_034255
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.200
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_034255

Location Chr07:93410203-93412866 (+)

Description Similar to ENDO4: Endonuclease 4

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g21585`	Endonuclease that can use single-stranded RNA and DNA as substrates.	No verified direct reference in this release
`At4g21600`	Hydrolyzes, with low efficiency, only single-stranded DNA and RNA without apparent specificity for bases.	No verified direct reference in this release
`At4g21590`	Endonuclease that can use RNA and single-stranded DNA as substrates.	No verified direct reference in this release
`At1g68290`	Endonuclease mostly active on RNA and ssDNA, and to a lower extent, on dsDNA.	Arabidopsis ENDO2: its catalytic role and requirement of N-glycosylation for function.2012 · DOI: 10.1021/jf300945c
`At1g11190`	Endonuclease that can use RNA, single-stranded and double- stranded DNA as substrates.	Identification of BFN1, a bifunctional nuclease induced during leaf and stem senescence in Arabidopsis.2000 · DOI: 10.1104/pp.122.1.169 Characterization of Arabidopsis thaliana mismatch specific endonucleases: application to mutation discovery by TILLING in pea.2007 · DOI: 10.1111/j.1365-313x.2007.03201.x Expression analysis of the BFN1 nuclease gene promoter during senescence, abscission, and programmed cell death-related processes.2008 · DOI: 10.1093/jxb/ern176

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_034255 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006308 DNA catabolic process Biological Process

GO:0010150 leaf senescence Biological Process

GO:0080187 floral organ senescence Biological Process

GO:0005576 extracellular region Cellular Component

GO:0000014 single-stranded DNA endodeoxyribonuclease activity Molecular Function

GO:0003676 nucleic acid binding Molecular Function

GO:0004519 endonuclease activity Molecular Function

GO:0004521 RNA endonuclease activity Molecular Function

GO:0016891 RNA endonuclease activity producing 5'-phosphomonoesters, hydrolytic mechanism Molecular Function

GO:0043765 T/G mismatch-specific endonuclease activity Molecular Function

GO:0046872 metal ion binding Molecular Function

GO:1990238 double-stranded DNA endonuclease activity Molecular Function

KEGG gene cross-reference

ath:AT1G11190

ath:AT1G68290

ath:AT4G21585

ath:AT4G21590

ath:AT4G21600

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.

Extracellular0.397

Rank 1 · LXL04_034255 · OH-1004

Lysosome / Vacuole0.305

Rank 2 · LXL04_034255 · OH-1004

Cytoplasm0.150

Rank 3 · LXL04_034255 · OH-1004

Cell membrane0.145

Rank 4 · LXL04_034255 · OH-1004

Endoplasmic reticulum0.105

Rank 5 · LXL04_034255 · 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.

PF02265.23S1-P1_nuclease81-334 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_034255	`PF02265.23`	S1-P1_nuclease	81	334	1.7e-83	281.1

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
`F4JJL0`	Arabidopsis thaliana	Endonuclease 4	58.702%	Swiss-Prot	strong database homology
`F4JJL3`	Arabidopsis thaliana	Endonuclease 5	52.071%	Swiss-Prot	strong database homology
`Q8LDW6`	Arabidopsis thaliana	Endonuclease 3	51.183%	Swiss-Prot	strong database homology
`Q9C9G4`	Arabidopsis thaliana	Endonuclease 2	50.629%	Swiss-Prot	strong database homology
`Q9SXA6`	Arabidopsis thaliana	Endonuclease 1	53.506%	Swiss-Prot	strong database homology

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