LXL04_006173 | RubberDandelionOmics

Gene overview

LXL04_006173

Reference: OH-1004 Chr: Chr02 Coordinates: 3051223-3054525 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

822 bp · LXL04_006173|LXL04_006173|OH1004|cDNA

ATGGCGGATGAAAACGACGCGTTTTACGTCGTCAGGAAAGGCGACATTGTTGGCGTGTACAAAAGTTTGACTGATTGCCAGCCTCTGTTATGTGGTTCAGACGTTGATGTTTTCAAAGGCTATAGATTGTCTAAAACTGCTGAAAATTTTCTTGCCTCACATGGACTCAGTAGTGCGATATATTCAGTTGGTGTTTCTAATTTGCAACGTGAACATTTTGGTCAACTTATTCCTTGTCCATTTCAGCAACCAGTTTCCGT...

CDS

Download CDS FASTA

822 bp · LXL04_006173|LXL04_006173|OH1004|CDS

ATGGCGGATGAAAACGACGCGTTTTACGTCGTCAGGAAAGGCGACATTGTTGGCGTGTACAAAAGTTTGACTGATTGCCAGCCTCTGTTATGTGGTTCAGACGTTGATGTTTTCAAAGGCTATAGATTGTCTAAAACTGCTGAAAATTTTCTTGCCTCACATGGACTCAGTAGTGCGATATATTCAGTTGGTGTTTCTAATTTGCAACGTGAACATTTTGGTCAACTTATTCCTTGTCCATTTCAGCAACCAGTTTCCGT...

Protein

Download Protein FASTA

273 aa · LXL04_006173|LXL04_006173|OH1004|PROTEIN

MADENDAFYVVRKGDIVGVYKSLTDCQPLLCGSDVDVFKGYRLSKTAENFLASHGLSSAIYSVGVSNLQREHFGQLIPCPFQQPVSVNSKTPAENKIKKDIGSTTLSEAPKRNIPQTESFIEALPVSAYCCSCIVEFDGAAKGNPGPAGAGAVIRAVDGSLVYRVREGLGVATNNVAEYRAAILGLRYALERGFRHIRVQGDSKLVCMQVNGLWKTKTQNMADLCRVVKELKDKFMSFQICHVEREYNSEADAQANLGVY...

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_006173`
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_006173`
Location	Chr02:3051223-3054525 (+)
Description	Similar to rnhA: Ribonuclease HI (Halobacterium salinarum (strain ATCC 700922 / JCM 11081 / NRC-1)
Arabidopsis / Rice Reference Genes and Papers	Download references for this gene Arabidopsis No hit for this species in the current source table. Rice No hit for this species in the current source table.
Functional annotation source	View annotation sources Functional annotation source: OH1004 · `LXL04_006173` · GCA_047496595.1_OSU_TarKok_2.0.
GO annotations (OH1004 source)	GO:0006401 RNA catabolic process Biological Process GO:0005737 cytoplasm Cellular Component GO:0003676 nucleic acid binding Molecular Function GO:0003677 DNA binding Molecular Function GO:0003723 RNA binding Molecular Function GO:0004523 RNA-DNA hybrid ribonuclease activity Molecular Function GO:0004527 exonuclease activity Molecular Function GO:0016791 phosphatase activity Molecular Function GO:0032296 double-stranded RNA-specific ribonuclease activity Molecular Function GO:0043755 alpha-ribazole phosphatase activity Molecular Function GO:0046872 metal ion binding Molecular Function GO:0071667 DNA/RNA hybrid binding Molecular Function
KEGG gene cross-reference	hal:VNG_0255C mbo:BQ2027_MB2253C mtc:MT2287 mtu:Rv2228c mtv:RVBD_2228c sto:STK_07530 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.

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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.

Cytoplasm0.585

Rank 1 · LXL04_006173 · OH-1004

Nucleus0.435

Rank 2 · LXL04_006173 · OH-1004

Mitochondrion0.070

Rank 3 · LXL04_006173 · OH-1004

Cell membrane0.067

Rank 4 · LXL04_006173 · OH-1004

Endoplasmic reticulum0.060

Rank 5 · LXL04_006173 · 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.

PF01693.24Cauli_VI8-51 aa

PF13456.13RVT_3137-256 aa

PF00075.31RNase_H137-230 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_006173	`PF01693.24`	Cauli_VI	8	51	7.5e-06	26.8
LXL04_006173	`PF13456.13`	RVT_3	137	256	1.2e-25	90.5
LXL04_006173	`PF00075.31`	RNase_H	137	230	3.4e-08	34.5

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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