LXL04_028788 | RubberDandelionOmics

Gene overview

LXL04_028788

Reference: OH-1004 Chr: Chr06 Coordinates: 62997595-62999964 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2370 bp · LXL04_028788|LXL04_028788|OH1004|cDNA

atggacctcatgaatagggtgtgcagaccgtacctggacaagttcgtgatagtattcatcgatgatatactcatatactcacgaagcgaagctgaacatggaagacatctgcggttgatcttggagcttctaaggaaagaaaggctgtatgccaagttctccaagtgcgaattctggttacgggaagtgaaattcttgggacacgtggttagtcacgagggaatacacgtggacccatccaagattgaggcaatcaaaga...

CDS

Download CDS FASTA

2370 bp · LXL04_028788|LXL04_028788|OH1004|CDS

ATGGACCTCATGAATAGGGTGTGCAGACCGTACCTGGACAAGTTCGTGATAGTATTCATCGATGATATACTCATATACTCACGAAGCGAAGCTGAACATGGAAGACATCTGCGGTTGATCTTGGAGCTTCTAAGGAAAGAAAGGCTGTATGCCAAGTTCTCCAAGTGCGAATTCTGGTTACGGGAAGTGAAATTCTTGGGACACGTGGTTAGTCACGAGGGAATACACGTGGACCCATCCAAGATTGAGGCAATCAAAGA...

Protein

Download Protein FASTA

789 aa · LXL04_028788|LXL04_028788|OH1004|PROTEIN

MDLMNRVCRPYLDKFVIVFIDDILIYSRSEAEHGRHLRLILELLRKERLYAKFSKCEFWLREVKFLGHVVSHEGIHVDPSKIEAIKDWKAPKTPTEIRQFLGLAGYYRRFIANFSKLAKPLTALTQKGVAFDWEDKQEESFQKLKHMLCTAPILSLPEGTEDFVVYCDASKQGLGCVLMQRNKVIAYASRQLKVNEVNYTTHDLELGAVVFALKIWRHYLYGTKCTIFTDHKSLQHIFDQKELNMRQRRWVELLNDYECE...

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_028788`
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_028788`
Location	Chr06:62997595-62999964 (-)
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_028788` · 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:2542672 spo:2542797 spo:2543673 spo:3361218 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.

Cytoplasm0.513

Rank 1 · LXL04_028788 · OH-1004

Nucleus0.377

Rank 2 · LXL04_028788 · OH-1004

Mitochondrion0.153

Rank 3 · LXL04_028788 · OH-1004

Cell membrane0.034

Rank 4 · LXL04_028788 · OH-1004

Endoplasmic reticulum0.023

Rank 5 · LXL04_028788 · 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.

PF00078.33RVT_13-69 aa

PF17919.8RT_RNaseH_2133-227 aa

PF17917.8RT_RNaseH160-257 aa

PF17921.8Integrase_H2C2349-402 aa

PF00665.33rve426-517 aa

PF29688.1TnsB_C470-535 aa

PF31073.1DUF8803641-708 aa

PF24626.2SH3_Tf2-1644-708 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_028788	`PF00078.33`	RVT_1	3	69	2.3e-12	47.9
LXL04_028788	`PF17919.8`	RT_RNaseH_2	133	227	2.1e-30	105.4
LXL04_028788	`PF17917.8`	RT_RNaseH	160	257	5.1e-34	117.3
LXL04_028788	`PF17921.8`	Integrase_H2C2	349	402	1.8e-17	64.0
LXL04_028788	`PF00665.33`	rve	426	517	2.1e-08	35.1
LXL04_028788	`PF29688.1`	TnsB_C	470	535	6.8e-06	26.7
LXL04_028788	`PF31073.1`	DUF8803	641	708	7e-08	32.9
LXL04_028788	`PF24626.2`	SH3_Tf2-1	644	708	5.4e-28	97.6

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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