LXL04_008128 | RubberDandelionOmics

Gene overview

LXL04_008128

Reference: OH-1004 Chr: Chr02 Coordinates: 88000113-88004621 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

4509 bp · LXL04_008128|LXL04_008128|OH1004|cDNA

atgcctcccaagggtatgagcccggcagcggtacaagctctggttgcggctagcgtggccgaggccttagcgaactacgatgccgcccgacgacgaaacgagggtcaaggtggaggtggtgaaggcagtggtagcggcggaggtagtggtggaagtggaaataaccctagagcctgcacttataaggactttgtaaactgcaaaccaaagtctttctccgggactggcggcgtgattgagctcacccgctggttcgaaaa...

CDS

Download CDS FASTA

4509 bp · LXL04_008128|LXL04_008128|OH1004|CDS

ATGCCTCCCAAGGGTATGAGCCCGGCAGCGGTACAAGCTCTGGTTGCGGCTAGCGTGGCCGAGGCCTTAGCGAACTACGATGCCGCCCGACGACGAAACGAGGGTCAAGGTGGAGGTGGTGAAGGCAGTGGTAGCGGCGGAGGTAGTGGTGGAAGTGGAAATAACCCTAGAGCCTGCACTTATAAGGACTTTGTAAACTGCAAACCAAAGTCTTTCTCCGGGACTGGCGGCGTGATTGAGCTCACCCGCTGGTTCGAAAA...

Protein

Download Protein FASTA

1502 aa · LXL04_008128|LXL04_008128|OH1004|PROTEIN

MPPKGMSPAAVQALVAASVAEALANYDAARRRNEGQGGGGEGSGSGGGSGGSGNNPRACTYKDFVNCKPKSFSGTGGVIELTRWFEKTEAVFAISSCPEDFKVKYAACTFEDGALTWWNGHVQTMGLLAANALTWEVLKEMLLREYCPRGEVQKLEQEFWNLTMKGSDIQAYTTRFTELAVLCPGMVSPEYKKVERYIWGLATNIQSHVTTASPATFESAKALAVKLTEEGIRQGAKVQKTEAPKREDNKRKTWSRNKPN...

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_008128`
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_008128`
Location	Chr02:88000113-88004621 (+)
Description	Similar to TY3B-I: Transposon Ty3-I 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_008128` · 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 spo:2538755 spo:2541833 spo:2541991 spo:3361422 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.

Cytoplasm0.617

Rank 1 · LXL04_008128 · OH-1004

Nucleus0.345

Rank 2 · LXL04_008128 · OH-1004

Mitochondrion0.121

Rank 3 · LXL04_008128 · OH-1004

Cell membrane0.061

Rank 4 · LXL04_008128 · OH-1004

Endoplasmic reticulum0.040

Rank 5 · LXL04_008128 · 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_capsid66-251 aa

PF03732.25PEG10_N-capsid68-146 aa

PF08284.17RVP_2363-491 aa

PF30863.1PRO_PEG10-RTL1395-482 aa

PF00078.33RVT_1623-782 aa

PF17919.8RT_RNaseH_2846-940 aa

PF17917.8RT_RNaseH873-970 aa

PF17921.8Integrase_H2C21062-1114 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_008128	`PF19259.5`	Ty3_capsid	66	251	4.1e-11	43.4
LXL04_008128	`PF03732.25`	PEG10_N-capsid	68	146	5.1e-11	43.5
LXL04_008128	`PF08284.17`	RVP_2	363	491	2.2e-28	99.4
LXL04_008128	`PF30863.1`	PRO_PEG10-RTL1	395	482	5.1e-11	43.7
LXL04_008128	`PF00078.33`	RVT_1	623	782	6.9e-40	137.8
LXL04_008128	`PF17919.8`	RT_RNaseH_2	846	940	5.9e-30	104.0
LXL04_008128	`PF17917.8`	RT_RNaseH	873	970	3.2e-33	114.7
LXL04_008128	`PF17921.8`	Integrase_H2C2	1062	1114	1.6e-16	60.9
LXL04_008128	`PF00665.33`	rve	1139	1230	7.6e-08	33.3
LXL04_008128	`PF31073.1`	DUF8803	1354	1421	1.5e-06	28.6
LXL04_008128	`PF24626.2`	SH3_Tf2-1	1357	1421	1.3e-27	96.4

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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