LXL04_015851 | RubberDandelionOmics

Gene overview

LXL04_015851

Reference: OH-1004 Chr: Chr03 Coordinates: 92000268-92002688 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2397 bp · LXL04_015851|LXL04_015851|OH1004|cDNA

atggcacGTACTCGTAGTGGGCAAGGAGGATCGCGTAACGGAAGTCAAGTTTCTCGGGGGAGgccgagaaatgagaaccgccctcctccaatcttagaggatggaaatagcaatcccacaccgcttcttcatgaccaacaagtgcaaaaccgagtggagatgaataaccttataaacgaaaggttacaagagttttcaaaagctctaactcatgatgcggcatctgggagtgtgcatccctcccactccccgactcatga...

CDS

Download CDS FASTA

2397 bp · LXL04_015851|LXL04_015851|OH1004|CDS

ATGGCACGTACTCGTAGTGGGCAAGGAGGATCGCGTAACGGAAGTCAAGTTTCTCGGGGGAGGCCGAGAAATGAGAACCGCCCTCCTCCAATCTTAGAGGATGGAAATAGCAATCCCACACCGCTTCTTCATGACCAACAAGTGCAAAACCGAGTGGAGATGAATAACCTTATAAACGAAAGGTTACAAGAGTTTTCAAAAGCTCTAACTCATGATGCGGCATCTGGGAGTGTGCATCCCTCCCACTCCCCGACTCATGA...

Protein

Download Protein FASTA

798 aa · LXL04_015851|LXL04_015851|OH1004|PROTEIN

MARTRSGQGGSRNGSQVSRGRPRNENRPPPILEDGNSNPTPLLHDQQVQNRVEMNNLINERLQEFSKALTHDAASGSVHPSHSPTHESHHTSRHSPSPLPQNPPGPRCTFKEFMTCRPKEFQGRKDPKVTMHWLAEIEQVLRVCQCEEDMKVTFASQMLKGDALTWWNTLTTSLGGGVVASFTWAEFVRRIKLKFCSPMHKEMIVNEFFALKKGNMTVDEYSKKFTDMVLFLEDTFPLESGRINRYVNGLPGDYLLEVGK...

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_015851`
TK1151 ID	TkA03G393640
OH-1004 ID	LXL04_015851
Relationship / confidence	Non Reciprocal Best Hit / Complex relationship
Protein identity (%)	70.800
Protein coverage (%)	TK1151 99.837 / OH-1004 83.835 Coverage and evidence Coverage is the aligned span of the best-scoring HSP divided by representative protein length. A homolog match does not establish functional validation.
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_015851`
Location	Chr03:92000268-92002688 (-)
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_015851` · GCA_047496595.1_OSU_TarKok_2.0.
GO annotations (OH1004 source)	GO:0006281 DNA repair Biological Process 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:0042575 DNA polymerase complex Cellular Component GO:0003676 nucleic acid binding Molecular Function GO:0003677 DNA binding Molecular Function GO:0003723 RNA binding Molecular Function GO:0003887 DNA-directed DNA polymerase 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.

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.

Cytoplasm0.744

Rank 1 · LXL04_015851 · OH-1004

Nucleus0.328

Rank 2 · LXL04_015851 · OH-1004

Mitochondrion0.058

Rank 3 · LXL04_015851 · OH-1004

Endoplasmic reticulum0.056

Rank 4 · LXL04_015851 · OH-1004

Cell membrane0.055

Rank 5 · LXL04_015851 · 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_capsid109-287 aa

PF03732.25PEG10_N-capsid117-195 aa

PF00098.29zf-CCHC336-350 aa

PF08284.17RVP_2394-522 aa

PF30863.1PRO_PEG10-RTL1425-511 aa

PF00078.33RVT_1655-794 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_015851	`PF19259.5`	Ty3_capsid	109	287	1.9e-14	54.3
LXL04_015851	`PF03732.25`	PEG10_N-capsid	117	195	3.2e-14	53.7
LXL04_015851	`PF00098.29`	zf-CCHC	336	350	3.5e-09	37.0
LXL04_015851	`PF08284.17`	RVP_2	394	522	9.2e-30	103.9
LXL04_015851	`PF30863.1`	PRO_PEG10-RTL1	425	511	1.9e-09	38.7
LXL04_015851	`PF00078.33`	RVT_1	655	794	4.3e-34	118.9

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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