LXL04_026545 | RubberDandelionOmics

Gene overview

LXL04_026545

Reference: OH-1004 Chr: Chr05 Coordinates: 128011120-128022733 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

6657 bp · LXL04_026545|LXL04_026545|OH1004|cDNA

ATGGGCGCCTCCGGTCTTCTGCAAAGGTCGTCGGTGAGTTCTCGAGGTGGAGGTGAAGAATCGGGGAAGGAGATGGGAAACAAGTGGGGTGAGGGAGGTCAAAGGTTGTCGCTTGGGGGGAGGGGGGGGAGGGGCTTTCCCGATTTTGAGGAGTTGTCTCCAAGAAGGAGACAAAATTGGCAGCTGCATGAGCAAGGTTCACCCCAAATTACGCCTTCATCCTCACCTCCTCCCTCTCCCAAAACGAGCACGATGTCAGG...

CDS

Download CDS FASTA

6657 bp · LXL04_026545|LXL04_026545|OH1004|CDS

ATGGGCGCCTCCGGTCTTCTGCAAAGGTCGTCGGTGAGTTCTCGAGGTGGAGGTGAAGAATCGGGGAAGGAGATGGGAAACAAGTGGGGTGAGGGAGGTCAAAGGTTGTCGCTTGGGGGGAGGGGGGGGAGGGGCTTTCCCGATTTTGAGGAGTTGTCTCCAAGAAGGAGACAAAATTGGCAGCTGCATGAGCAAGGTTCACCCCAAATTACGCCTTCATCCTCACCTCCTCCCTCTCCCAAAACGAGCACGATGTCAGG...

Protein

Download Protein FASTA

2218 aa · LXL04_026545|LXL04_026545|OH1004|PROTEIN

MGASGLLQRSSVSSRGGGEESGKEMGNKWGEGGQRLSLGGRGGRGFPDFEELSPRRRQNWQLHEQGSPQITPSSSPPPSPKTSTMSGESSNLATNLKDNLTIVTFPSALKLTSTNYLGWKTQVEALLQGLDLYRFIDGTHLALEPTTAPDGSKVPHTDCNNWFRHDRLLFGALVGSLSPPIIPLITNAASSLDAWKTLASTYASPSRGHIKQLQYRLKQLTKTSDQTITDYMQNVKTIVDELAILGKKMDAEDITDAVLH...

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_026545`
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_026545

Location Chr05:128011120-128022733 (-)

Description Similar to RE1: Retrovirus-related Pol polyprotein from transposon RE1

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_026545 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006310 DNA recombination Biological Process

GO:0006508 proteolysis Biological Process

GO:0015074 DNA integration Biological Process

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: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.

Nucleus0.637

Rank 1 · LXL04_026545 · OH-1004

Cytoplasm0.449

Rank 2 · LXL04_026545 · OH-1004

Mitochondrion0.049

Rank 3 · LXL04_026545 · OH-1004

Endoplasmic reticulum0.029

Rank 4 · LXL04_026545 · OH-1004

Cell membrane0.027

Rank 5 · LXL04_026545 · 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.

PF14223.15Retrotran_gag_2123-297 aa

PF13976.12gag_pre-integrs439-482 aa

PF00665.33rve495-593 aa

PF25597.2SH3_retrovirus646-707 aa

PF07727.20RVT_2857-958 aa

PF07727.20RVT_2960-1075 aa

PF13966.12zf-RVT1347-1411 aa

PF03108.21DBD_Tnp_Mut1628-1693 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_026545	`PF14223.15`	Retrotran_gag_2	123	297	8.8e-25	88.1
LXL04_026545	`PF13976.12`	gag_pre-integrs	439	482	1.1e-08	35.5
LXL04_026545	`PF00665.33`	rve	495	593	1.2e-08	35.9
LXL04_026545	`PF25597.2`	SH3_retrovirus	646	707	1.2e-22	80.1
LXL04_026545	`PF07727.20`	RVT_2	857	958	2.4e-52	178.7
LXL04_026545	`PF07727.20`	RVT_2	960	1075	2.4e-52	178.7
LXL04_026545	`PF13966.12`	zf-RVT	1347	1411	2.8e-12	47.8
LXL04_026545	`PF03108.21`	DBD_Tnp_Mut	1628	1693	3.4e-07	30.5
LXL04_026545	`PF10551.16`	MULE	1827	1923	8.8e-16	58.8
LXL04_026545	`PF00872.25`	Transposase_mut	1846	1927	4.6e-06	26.5

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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Protein	Organism	Description	Identity	Database	Confidence
`Q94HW2`	Arabidopsis thaliana	Retrovirus-related Pol polyprotein from transposon RE1	50.564%	Swiss-Prot	weak database homology
`Q9ZT94`	Arabidopsis thaliana	Retrovirus-related Pol polyprotein from transposon RE2	50.192%	Swiss-Prot	weak database homology
`P92519`	Arabidopsis thaliana	Uncharacterized mitochondrial protein AtMg00810	48.035%	Swiss-Prot	weak database homology

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