LXL04_033674 | RubberDandelionOmics

Gene overview

LXL04_033674

Reference: OH-1004 Chr: Chr07 Coordinates: 52618058-52638976 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

7362 bp · LXL04_033674|LXL04_033674|OH1004|cDNA

ATGTTCAATGCTGTCACTCTAAACGAACCGCCTCATGCTGACTGGTACATGGATACGGGAGCCACAACCCACCTACACACGGACCCAGGTATCCTCCGTTCTGTTCAAAATAATGCTTTGCCCTCTTCGGTATTAGTCGGTGATGGGTCCCATATTCCTACCAAACGAACTCTTCTGCGATGTGACAGCACCGGGGATCTTTATCCAGTCACAAAGCCAACCGCTCAAGCTCTCTTTTCCATCGGCTCCATTCAATTACG...

CDS

Download CDS FASTA

7362 bp · LXL04_033674|LXL04_033674|OH1004|CDS

ATGTTCAATGCTGTCACTCTAAACGAACCGCCTCATGCTGACTGGTACATGGATACGGGAGCCACAACCCACCTACACACGGACCCAGGTATCCTCCGTTCTGTTCAAAATAATGCTTTGCCCTCTTCGGTATTAGTCGGTGATGGGTCCCATATTCCTACCAAACGAACTCTTCTGCGATGTGACAGCACCGGGGATCTTTATCCAGTCACAAAGCCAACCGCTCAAGCTCTCTTTTCCATCGGCTCCATTCAATTACG...

Protein

Download Protein FASTA

2453 aa · LXL04_033674|LXL04_033674|OH1004|PROTEIN

MFNAVTLNEPPHADWYMDTGATTHLHTDPGILRSVQNNALPSSVLVGDGSHIPTKRTLLRCDSTGDLYPVTKPTAQALFSIGSIQLRFSCPYTSQQNGKSERMIRTINNVIRTLLFHAHVPPQYWVEALHMAVYLSNILPSTTLNNTTPYHKLFNEPPKYDHLRVFGCLCYPHTVAPHKLAPRTTPCVFLGYPVQHRGYRCLDLETNKTFISRHVIFDETSFPFSSMTPVQSPSYCFLDHDLDDANSISKSFLCSSSPST...

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_033674`
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_033674

Location Chr07:52618058-52638976 (+)

Description Similar to Retrovirus-related Pol polyprotein from transposon TNT 1-94

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_033674 · 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.

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.

Cytoplasm0.586

Rank 1 · LXL04_033674 · OH-1004

Nucleus0.279

Rank 2 · LXL04_033674 · OH-1004

Endoplasmic reticulum0.093

Rank 3 · LXL04_033674 · OH-1004

Mitochondrion0.078

Rank 4 · LXL04_033674 · OH-1004

Peroxisome0.062

Rank 5 · LXL04_033674 · 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.

PF25597.2SH3_retrovirus168-227 aa

PF07727.20RVT_2391-494 aa

PF07727.20RVT_2497-558 aa

PF00067.28p450941-1070 aa

PF00067.28p4501258-1391 aa

PF14223.15Retrotran_gag_21493-1593 aa

PF22936.2Pol_BBD1619-1700 aa

PF25597.2SH3_retrovirus1826-1889 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_033674	`PF25597.2`	SH3_retrovirus	168	227	5.2e-39	132.6
LXL04_033674	`PF07727.20`	RVT_2	391	494	8.9e-117	389.7
LXL04_033674	`PF07727.20`	RVT_2	497	558	8.9e-117	389.7
LXL04_033674	`PF00067.28`	p450	941	1070	1.7e-23	83.9
LXL04_033674	`PF00067.28`	p450	1258	1391	1.7e-23	83.9
LXL04_033674	`PF14223.15`	Retrotran_gag_2	1493	1593	5.9e-12	46.4
LXL04_033674	`PF22936.2`	Pol_BBD	1619	1700	3.7e-30	104.8
LXL04_033674	`PF25597.2`	SH3_retrovirus	1826	1889	5.2e-39	132.6
LXL04_033674	`PF07727.20`	RVT_2	1961	2204	8.9e-117	389.7

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	38.600%	Swiss-Prot	weak database homology
`Q9ZT94`	Arabidopsis thaliana	Retrovirus-related Pol polyprotein from transposon RE2	37.885%	Swiss-Prot	weak database homology
`P92519`	Arabidopsis thaliana	Uncharacterized mitochondrial protein AtMg00810	48.792%	Swiss-Prot	weak database homology

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