LXL04_029209 | RubberDandelionOmics

Gene overview

LXL04_029209

Reference: OH-1004 Chr: Chr06 Coordinates: 83789646-83806826 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

7017 bp · LXL04_029209|LXL04_029209|OH1004|cDNA

ATGTGGCTCTCCCATTTCTTTAAAACCACTCGACTCGGGTACTCTGTGGAATCGATAAAAGCAGAGTGTGAAGAAGAGCttgaaaaagaaacaaaaatggtGATATATGCGTGTGGTAGCATCACTGTGAAGGTAACGGCTTGGACGGACAATAATCCAGGTAGGAGGTTTTGGTCTTGTGCTAGAAACGGGTCAAATTGTGGTTTTATTGGATGGACATCCGATCCCATGTGTCCTAGGGCTGTACAGATCACTCCTGG...

CDS

Download CDS FASTA

7017 bp · LXL04_029209|LXL04_029209|OH1004|CDS

ATGTGGCTCTCCCATTTCTTTAAAACCACTCGACTCGGGTACTCTGTGGAATCGATAAAAGCAGAGTGTGAAGAAGAGCTTGAAAAAGAAACAAAAATGGTGATATATGCGTGTGGTAGCATCACTGTGAAGGTAACGGCTTGGACGGACAATAATCCAGGTAGGAGGTTTTGGTCTTGTGCTAGAAACGGGTCAAATTGTGGTTTTATTGGATGGACATCCGATCCCATGTGTCCTAGGGCTGTACAGATCACTCCTGG...

Protein

Download Protein FASTA

2338 aa · LXL04_029209|LXL04_029209|OH1004|PROTEIN

MWLSHFFKTTRLGYSVESIKAECEEELEKETKMVIYACGSITVKVTAWTDNNPGRRFWSCARNGSNCGFIGWTSDPMCPRAVQITPGLLRSKNNVDKKLKKAESDLCIASLRKFSNRFMEFNLSSSRFRLNLCHYILFLEKAMAVVKEFEHLRIPFLDIKLATKNFTTLIGVGGYGSVFRGELSLAGKLTSVAVKRLPNINLSGQGLKEFLTEIHLLSRYKHPNLVTLLGFCEENDEKILIYKYAERGSFDNYLNPAEIT...

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_029209`
TK1151 ID	TkA07G284860
OH-1004 ID	LXL04_029209
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	92.500
Protein coverage (%)	TK1151 94.664 / OH-1004 23.482 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_029209

Location Chr06:83789646-83806826 (+)

Description Similar to RE1: Retrovirus-related Pol polyprotein from transposon RE1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`UniProt: Q94HW2`	Retrovirus-related Pol polyprotein from transposon RE1.	No verified direct reference in this release
`At4g02960`	Retrovirus-related Pol polyprotein from transposon RE2.	No verified direct reference in this release
`UniProt: P92519`	Uncharacterized mitochondrial protein AtMg00810.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

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Functional annotation source: OH1004 · LXL04_029209 · 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:0003676 nucleic acid binding 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

GO:0008270 zinc ion binding Molecular Function

KEGG gene cross-reference No functional description available

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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.

Cytoplasm0.601

Rank 1 · LXL04_029209 · OH-1004

Nucleus0.484

Rank 2 · LXL04_029209 · OH-1004

Mitochondrion0.055

Rank 3 · LXL04_029209 · OH-1004

Endoplasmic reticulum0.052

Rank 4 · LXL04_029209 · OH-1004

Cell membrane0.044

Rank 5 · LXL04_029209 · 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.

PF07714.24PK_Tyr_Ser-Thr167-439 aa

PF00069.32Pkinase168-436 aa

PF14299.14PP2571-698 aa

PF14223.15Retrotran_gag_2859-1033 aa

PF00665.33rve1217-1315 aa

PF25597.2SH3_retrovirus1389-1450 aa

PF07727.20RVT_21640-1880 aa

PF14299.14PP22162-2262 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_029209	`PF07714.24`	PK_Tyr_Ser-Thr	167	439	1.1e-40	140.3
LXL04_029209	`PF00069.32`	Pkinase	168	436	3.2e-41	142.2
LXL04_029209	`PF14299.14`	PP2	571	698	2e-17	64.2
LXL04_029209	`PF14223.15`	Retrotran_gag_2	859	1033	1e-21	78.2
LXL04_029209	`PF00665.33`	rve	1217	1315	2.7e-10	41.1
LXL04_029209	`PF25597.2`	SH3_retrovirus	1389	1450	4.8e-21	75.0
LXL04_029209	`PF07727.20`	RVT_2	1640	1880	1.3e-68	231.9
LXL04_029209	`PF14299.14`	PP2	2162	2262	2e-17	64.2

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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Protein	Organism	Description	Identity	Database	Confidence
`Q94HW2`	Arabidopsis thaliana	Retrovirus-related Pol polyprotein from transposon RE1	56.805%	Swiss-Prot	weak database homology
`Q9ZT94`	Arabidopsis thaliana	Retrovirus-related Pol polyprotein from transposon RE2	55.534%	Swiss-Prot	weak database homology
`P92519`	Arabidopsis thaliana	Uncharacterized mitochondrial protein AtMg00810	49.351%	Swiss-Prot	weak database homology

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