LXL04_032413 | RubberDandelionOmics

Gene overview

LXL04_032413

Reference: OH-1004 Chr: Chr07 Coordinates: 22274598-22291795 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

5901 bp · LXL04_032413|LXL04_032413|OH1004|cDNA

ATGGAGAAGACGTTGGTGGAACTTCACGGGATGTTGAAGTCGGCTGAGGCTAGTATGGGGAAACCTATACAGAACGCTTCAGCTCCAGTCCTGACCATCCGCGAAGGTGGctacaagaagaagaaagtctCCTTTCCCAAGGGCAAAGGGAAAAGCAAGGTTGCTCACAACCATGCGAAGAAAAGGAAGACCGATTCTGAGATAGCACCGGTGAGTGACCCCTCTGAGGCCGTTTGCTTTTACTGTCAGcaaaaggggca...

CDS

Download CDS FASTA

5901 bp · LXL04_032413|LXL04_032413|OH1004|CDS

ATGGAGAAGACGTTGGTGGAACTTCACGGGATGTTGAAGTCGGCTGAGGCTAGTATGGGGAAACCTATACAGAACGCTTCAGCTCCAGTCCTGACCATCCGCGAAGGTGGCTACAAGAAGAAGAAAGTCTCCTTTCCCAAGGGCAAAGGGAAAAGCAAGGTTGCTCACAACCATGCGAAGAAAAGGAAGACCGATTCTGAGATAGCACCGGTGAGTGACCCCTCTGAGGCCGTTTGCTTTTACTGTCAGCAAAAGGGGCA...

Protein

Download Protein FASTA

1966 aa · LXL04_032413|LXL04_032413|OH1004|PROTEIN

MEKTLVELHGMLKSAEASMGKPIQNASAPVLTIREGGYKKKKVSFPKGKGKSKVAHNHAKKRKTDSEIAPVSDPSEAVCFYCQQKGHWKRSCPKYLEDLKNNKAKGIGTSGIFMIELHNTTSSSDSWVLDIGCGTHICSKLQGLKESRTLEHSELNLIMGNRKTAAVTKIGTYELMLGNGVSFNLFNVCYSPYMAQNILSFHALYLDGFKFEFDNDNGSILVYKHGCLYFTAYPCNGVYEGIICVGRNNHNKLTLNVGSS...

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_032413`
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_032413

Location Chr07:22274598-22291795 (+)

Description Similar to Retrovirus-related Pol polyprotein from transposon TNT 1-94

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`UniProt: Q94HW2`	Retrovirus-related Pol polyprotein from transposon RE1.	No verified direct reference in this release
`At4g02960`	Retrovirus-related Pol polyprotein from transposon RE2.	No verified direct reference in this release
`UniProt: P92519`	Uncharacterized mitochondrial protein AtMg00810.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

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Functional annotation source: OH1004 · LXL04_032413 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006281 DNA repair Biological Process

GO:0006508 proteolysis Biological Process

GO:0015074 DNA integration Biological Process

GO:0071897 DNA biosynthetic process Biological Process

GO:0042575 DNA polymerase complex Cellular Component

GO:0003676 nucleic acid binding Molecular Function

GO:0003964 RNA-directed DNA polymerase activity Molecular Function

GO:0004190 aspartic-type endopeptidase activity Molecular Function

GO:0004519 endonuclease activity Molecular Function

GO:0005524 ATP binding Molecular Function

GO:0008270 zinc ion binding Molecular Function

KEGG gene cross-reference No functional description available

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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.

Cytoplasm0.504

Rank 1 · LXL04_032413 · OH-1004

Nucleus0.413

Rank 2 · LXL04_032413 · OH-1004

Mitochondrion0.093

Rank 3 · LXL04_032413 · OH-1004

Endoplasmic reticulum0.065

Rank 4 · LXL04_032413 · OH-1004

Cell membrane0.064

Rank 5 · LXL04_032413 · 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.

PF22936.2Pol_BBD127-205 aa

PF13976.12gag_pre-integrs257-310 aa

PF00665.33rve328-424 aa

PF25597.2SH3_retrovirus1167-1225 aa

PF07727.20RVT_21301-1429 aa

PF07727.20RVT_21625-1741 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_032413	`PF22936.2`	Pol_BBD	127	205	1e-10	42.5
LXL04_032413	`PF13976.12`	gag_pre-integrs	257	310	1.9e-12	47.5
LXL04_032413	`PF00665.33`	rve	328	424	1.7e-11	45.0
LXL04_032413	`PF25597.2`	SH3_retrovirus	1167	1225	6e-14	52.3
LXL04_032413	`PF07727.20`	RVT_2	1301	1429	2.9e-65	221.0
LXL04_032413	`PF07727.20`	RVT_2	1625	1741	2.9e-65	221.0

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
`Q94HW2`	Arabidopsis thaliana	Retrovirus-related Pol polyprotein from transposon RE1	30.387%	Swiss-Prot	weak database homology
`Q9ZT94`	Arabidopsis thaliana	Retrovirus-related Pol polyprotein from transposon RE2	30.110%	Swiss-Prot	weak database homology
`P92519`	Arabidopsis thaliana	Uncharacterized mitochondrial protein AtMg00810	29.114%	Swiss-Prot	weak database homology

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