LXL04_027866 | RubberDandelionOmics

Gene overview

LXL04_027866

Reference: OH-1004 Chr: Chr06 Coordinates: 25008912-25027927 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

10077 bp · LXL04_027866|LXL04_027866|OH1004|cDNA

ATGCTTCACGTAGGCAGCAAGGCAGGCACCAACGGGATCTTTCCGGCCGTTCTTCTTCCTCTAGCCCTCCTGCCGACATCCGACGTGCTCCAGCTATCCTCCGGCGACTTCCCCACTGCAGGTGTTGATGCACAGCAACCGGTTCCGGCACCAGCAGCGACCGGATTTCCGGCAaaatgtgttcgtgagttgagaaggaagaagaagaaaaggagggttTCTCCATCCAAGTCTTGCAAGCCAAATCCCAAGCAATTTAG...

CDS

Download CDS FASTA

10077 bp · LXL04_027866|LXL04_027866|OH1004|CDS

ATGCTTCACGTAGGCAGCAAGGCAGGCACCAACGGGATCTTTCCGGCCGTTCTTCTTCCTCTAGCCCTCCTGCCGACATCCGACGTGCTCCAGCTATCCTCCGGCGACTTCCCCACTGCAGGTGTTGATGCACAGCAACCGGTTCCGGCACCAGCAGCGACCGGATTTCCGGCAAAATGTGTTCGTGAGTTGAGAAGGAAGAAGAAGAAAAGGAGGGTTTCTCCATCCAAGTCTTGCAAGCCAAATCCCAAGCAATTTAG...

Protein

Download Protein FASTA

3358 aa · LXL04_027866|LXL04_027866|OH1004|PROTEIN

MLHVGSKAGTNGIFPAVLLPLALLPTSDVLQLSSGDFPTAGVDAQQPVPAPAATGFPAKCVRELRRKKKKRRVSPSKSCKPNPKQFRSFGVEESSSRRIQRRKASRRRINRCNKRSQDFYKPSYACHGGQPQGEPRLWYIVLSMVSPKGNLDKVISKEHMELKGVKFRNDLFEMARTRSGQGGGQSGSQNSRGRPRSVNRPPPIMEDGNSNPAPVTLEAIQKLLHDQQVQNRAEMNDLINERLQEFSKALTHDAASGSVQ...

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_027866`
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_027866`
Location	Chr06:25008912-25027927 (-)
Description	Similar to TY3B-G: Transposon Ty3-G Gag-Pol polyprotein (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
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_027866` · 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:0075523 viral translational frameshifting Biological Process GO:0005634 nucleus Cellular Component GO:0005737 cytoplasm Cellular Component GO:0003677 DNA binding Molecular Function GO:0003723 RNA binding Molecular Function GO:0003887 DNA-directed DNA polymerase activity 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
KEGG gene cross-reference	sce:YGR109W-B sce:YIL082W-A 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.

Cytoplasm0.479

Rank 1 · LXL04_027866 · OH-1004

Nucleus0.374

Rank 2 · LXL04_027866 · OH-1004

Mitochondrion0.118

Rank 3 · LXL04_027866 · OH-1004

Plastid0.060

Rank 4 · LXL04_027866 · OH-1004

Cell membrane0.058

Rank 5 · LXL04_027866 · 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.

PF19259.5Ty3_capsid290-461 aa

PF03732.25PEG10_N-capsid298-376 aa

PF00078.33RVT_1510-616 aa

PF17919.8RT_RNaseH_2679-772 aa

PF17917.8RT_RNaseH707-803 aa

PF17921.8Integrase_H2C2894-947 aa

PF00665.33rve970-1062 aa

PF29688.1TnsB_C1014-1080 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_027866	`PF19259.5`	Ty3_capsid	290	461	4.4e-24	85.7
LXL04_027866	`PF03732.25`	PEG10_N-capsid	298	376	3.3e-26	92.1
LXL04_027866	`PF00078.33`	RVT_1	510	616	3e-65	220.6
LXL04_027866	`PF17919.8`	RT_RNaseH_2	679	772	1.1e-61	205.8
LXL04_027866	`PF17917.8`	RT_RNaseH	707	803	1.5e-67	225.1
LXL04_027866	`PF17921.8`	Integrase_H2C2	894	947	6e-34	116.7
LXL04_027866	`PF00665.33`	rve	970	1062	9.2e-17	61.9
LXL04_027866	`PF29688.1`	TnsB_C	1014	1080	2.9e-13	50.5
LXL04_027866	`PF31073.1`	DUF8803	1176	1223	1.3e-16	60.9
LXL04_027866	`PF24626.2`	SH3_Tf2-1	1179	1237	2.3e-48	162.9
LXL04_027866	`PF03732.25`	PEG10_N-capsid	1561	1639	3.3e-26	92.1
LXL04_027866	`PF19259.5`	Ty3_capsid	1562	1718	4.4e-24	85.7
LXL04_027866	`PF00098.29`	zf-CCHC	1773	1787	6.2e-10	39.4
LXL04_027866	`PF00098.29`	zf-CCHC	1793	1809	6.2e-10	39.4
LXL04_027866	`PF08284.17`	RVP_2	1844	1972	2.7e-33	115.4
LXL04_027866	`PF00078.33`	RVT_1	2105	2264	3e-65	220.6

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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