LXL04_003784 | RubberDandelionOmics

Gene overview

LXL04_003784

Reference: OH-1004 Chr: Chr01 Coordinates: 101839154-101852936 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

6534 bp · LXL04_003784|LXL04_003784|OH1004|cDNA

ATGAGTAATATTAATCAAGCGCATGCTAACTCTGTTCATATTGCTAACAGTTTGGGAGCACCTTataaagctcccatacttgttacagaagaATACAATCATTGGGCCACTCGGTGCCAAGGCTACTTGAAAGGGAAAGATAAGGAGATCTGGCGCTCAATCGAACAAGGGCCACATGTTCCTACTCTAACCCAACGTCAAGCAACAGACGTCGAAGCTGCTCTAGGGGGCGAACCTACATATACACTGACACGGGATGA...

CDS

Download CDS FASTA

6534 bp · LXL04_003784|LXL04_003784|OH1004|CDS

ATGAGTAATATTAATCAAGCGCATGCTAACTCTGTTCATATTGCTAACAGTTTGGGAGCACCTTATAAAGCTCCCATACTTGTTACAGAAGAATACAATCATTGGGCCACTCGGTGCCAAGGCTACTTGAAAGGGAAAGATAAGGAGATCTGGCGCTCAATCGAACAAGGGCCACATGTTCCTACTCTAACCCAACGTCAAGCAACAGACGTCGAAGCTGCTCTAGGGGGCGAACCTACATATACACTGACACGGGATGA...

Protein

Download Protein FASTA

2177 aa · LXL04_003784|LXL04_003784|OH1004|PROTEIN

MSNINQAHANSVHIANSLGAPYKAPILVTEEYNHWATRCQGYLKGKDKEIWRSIEQGPHVPTLTQRQATDVEAALGGEPTYTLTRDDILKMKADDMATSEINYAIPPDVFDLVEDCASAYETWTNLHHLFAGTEATKDKKMMSAINVFSNFKALPSESLQDTFKRFKVCISRLKNSGNEKSNLEVNLKFNNSLVLSNSARSGGPLALLSNSADQVGTTLEHVSHQARAKTQMALEVNGLSYEDSKDDEDEEEVFQRELAL...

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_003784`
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_003784

Location Chr01:101839154-101852936 (-)

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: P92520`	Uncharacterized mitochondrial protein AtMg00820.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_003784 · 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:0071897 DNA biosynthetic process Biological Process

GO:0042575 DNA polymerase complex Cellular Component

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:0005524 ATP binding 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.

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.

Cytoplasm0.509

Rank 1 · LXL04_003784 · OH-1004

Nucleus0.437

Rank 2 · LXL04_003784 · OH-1004

Mitochondrion0.083

Rank 3 · LXL04_003784 · OH-1004

Cell membrane0.058

Rank 4 · LXL04_003784 · OH-1004

Endoplasmic reticulum0.052

Rank 5 · LXL04_003784 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

Open Subcellular Module

Predicted Functional Domains

Domain results are from Pfam-A/HMMER; positions are amino-acid coordinates on the protein sequence.

PF14223.15Retrotran_gag_292-180 aa

PF22936.2Pol_BBD610-685 aa

PF00665.33rve816-881 aa

PF29688.1TnsB_C835-896 aa

PF25597.2SH3_retrovirus919-973 aa

PF07727.20RVT_21078-1316 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_003784	`PF14223.15`	Retrotran_gag_2	92	180	7.6e-08	33.0
LXL04_003784	`PF22936.2`	Pol_BBD	610	685	4.3e-15	56.5
LXL04_003784	`PF00665.33`	rve	816	881	1.9e-07	32.0
LXL04_003784	`PF29688.1`	TnsB_C	835	896	2.5e-06	28.0
LXL04_003784	`PF25597.2`	SH3_retrovirus	919	973	2.8e-14	53.4
LXL04_003784	`PF07727.20`	RVT_2	1078	1316	1.4e-66	225.3

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q94HW2`	Arabidopsis thaliana	Retrovirus-related Pol polyprotein from transposon RE1	31.006%	Swiss-Prot	weak database homology
`Q9ZT94`	Arabidopsis thaliana	Retrovirus-related Pol polyprotein from transposon RE2	29.485%	Swiss-Prot	weak database homology
`P92520`	Arabidopsis thaliana	Uncharacterized mitochondrial protein AtMg00820	47.500%	Swiss-Prot	weak database homology

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