LXL04_017661 | RubberDandelionOmics

Gene overview

LXL04_017661

Reference: OH-1004 Chr: Chr03 Coordinates: 156198976-156202782 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

3720 bp · LXL04_017661|LXL04_017661|OH1004|cDNA

ATGACTCTTCACAATGATCCCGCTCAAGAACCCCCCACCCTTCAAGATCAGCTCCATGCCCTTATACAGTTATCCACCACTTCAAATAACCGCTTTGACTCCTTGATGGCTAATATGACGACCCAATCAGCTCGAATGGCTAACCAAGGTGAAACCCTCAATAATATCGTCCACCTCCTTACTACCCTCACCCAACACCTCAATCGCGAGCCTCCCcctccaccgccaccaccacctccaccgccccctCCACCGCCGCC...

CDS

Download CDS FASTA

3720 bp · LXL04_017661|LXL04_017661|OH1004|CDS

ATGACTCTTCACAATGATCCCGCTCAAGAACCCCCCACCCTTCAAGATCAGCTCCATGCCCTTATACAGTTATCCACCACTTCAAATAACCGCTTTGACTCCTTGATGGCTAATATGACGACCCAATCAGCTCGAATGGCTAACCAAGGTGAAACCCTCAATAATATCGTCCACCTCCTTACTACCCTCACCCAACACCTCAATCGCGAGCCTCCCCCTCCACCGCCACCACCACCTCCACCGCCCCCTCCACCGCCGCC...

Protein

Download Protein FASTA

1239 aa · LXL04_017661|LXL04_017661|OH1004|PROTEIN

MTLHNDPAQEPPTLQDQLHALIQLSTTSNNRFDSLMANMTTQSARMANQGETLNNIVHLLTTLTQHLNREPPPPPPPPPPPPPPPPPPPRNNNNPRPPKIQLPTFDGSNPLDWLFQADNYFTYYNIPADQRLALAVFYFSGDALSWYKHLATNNLLGDWQAFSRALQLRFGPSSYENHQAALFKLRQTGSVSAYQSEFERISNYVDGMTNDSLRNCFISGLRQDIQVELTLHRPTSLTDAYGLAKLIDDKLNHTRPKYPN...

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_017661`
TK1151 ID	TkA01G068750
OH-1004 ID	LXL04_017661
Relationship / confidence	Non Reciprocal Best Hit / Complex relationship
Protein identity (%)	53.400
Protein coverage (%)	TK1151 94.659 / OH-1004 28.491 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_017661`
Location	Chr03:156198976-156202782 (-)
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_017661` · 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.

Cytoplasm0.703

Rank 1 · LXL04_017661 · OH-1004

Nucleus0.488

Rank 2 · LXL04_017661 · OH-1004

Mitochondrion0.088

Rank 3 · LXL04_017661 · OH-1004

Peroxisome0.027

Rank 4 · LXL04_017661 · OH-1004

Cell membrane0.025

Rank 5 · LXL04_017661 · 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.

PF03732.25PEG10_N-capsid99-170 aa

PF19259.5Ty3_capsid130-245 aa

PF30901.1PEG10-RTL1_C-capsid180-251 aa

PF08284.17RVP_2358-448 aa

PF13975.12gag-asp_proteas358-448 aa

PF30863.1PRO_PEG10-RTL1369-453 aa

PF00078.33RVT_1600-760 aa

PF17919.8RT_RNaseH_2822-916 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_017661	`PF03732.25`	PEG10_N-capsid	99	170	2.9e-12	47.5
LXL04_017661	`PF19259.5`	Ty3_capsid	130	245	2.1e-07	31.3
LXL04_017661	`PF30901.1`	PEG10-RTL1_C-capsid	180	251	1.2e-07	32.3
LXL04_017661	`PF08284.17`	RVP_2	358	448	5e-12	46.5
LXL04_017661	`PF13975.12`	gag-asp_proteas	358	448	1e-07	33.2
LXL04_017661	`PF30863.1`	PRO_PEG10-RTL1	369	453	3.8e-08	34.4
LXL04_017661	`PF00078.33`	RVT_1	600	760	1.2e-36	127.2
LXL04_017661	`PF17919.8`	RT_RNaseH_2	822	916	1.9e-27	96.0
LXL04_017661	`PF17917.8`	RT_RNaseH	847	946	3.5e-28	98.5
LXL04_017661	`PF17921.8`	Integrase_H2C2	1033	1088	4.4e-19	69.1
LXL04_017661	`PF00665.33`	rve	1110	1202	1.4e-10	42.0

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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