LXL04_006662 | RubberDandelionOmics

Gene overview

LXL04_006662

Reference: OH-1004 Chr: Chr02 Coordinates: 21331031-21336094 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

4230 bp · LXL04_006662|LXL04_006662|OH1004|cDNA

atgaactctgtttctattgccaacagcttgggatctggttcacgagcacccatacttattcctgaagagtataattcgtgggttggTCGTATAaatcttcatcttaactccataaatgaagatgtctggaaatgtgtagaaggaacatatgttactccagaagatatgtctactcttgctataaatcaagccactcaagctgaaaccAAAAAGAAATTGGAACTCCAACCCAAAAAGGAACTTGTATCTGGAATTCCTCA...

CDS

Download CDS FASTA

4230 bp · LXL04_006662|LXL04_006662|OH1004|CDS

ATGAACTCTGTTTCTATTGCCAACAGCTTGGGATCTGGTTCACGAGCACCCATACTTATTCCTGAAGAGTATAATTCGTGGGTTGGTCGTATAAATCTTCATCTTAACTCCATAAATGAAGATGTCTGGAAATGTGTAGAAGGAACATATGTTACTCCAGAAGATATGTCTACTCTTGCTATAAATCAAGCCACTCAAGCTGAAACCAAAAAGAAATTGGAACTCCAACCCAAAAAGGAACTTGTATCTGGAATTCCTCA...

Protein

Download Protein FASTA

1409 aa · LXL04_006662|LXL04_006662|OH1004|PROTEIN

MNSVSIANSLGSGSRAPILIPEEYNSWVGRINLHLNSINEDVWKCVEGTYVTPEDMSTLAINQATQAETKKKLELQPKKELVSGIPHCILSQMDDIILLTANQIWENLKNHFCGNQRIIGNKKTSVLNEFDNFKILSSEIIHDAHDGFNFIMVKMNNLGIKKTQHEINLKFLNNLFESWKMVKLIIQGNPAIHTETFYNLYGELQSYESSIDPPTTTAFGGPLALVSTSSQNQTSFNDQTSNHFNQTSFQNQAFLNNSFD...

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_006662`
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_006662

Location Chr02:21331031-21336094 (-)

Description Similar to AtMg00820: Uncharacterized mitochondrial protein AtMg00820

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`UniProt: P92520`	Uncharacterized mitochondrial protein AtMg00820.	No verified direct reference in this release
`At4g02960`	Retrovirus-related Pol polyprotein from transposon RE2.	No verified direct reference in this release
`UniProt: Q94HW2`	Retrovirus-related Pol polyprotein from transposon RE1.	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_006662 · 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:0005739 mitochondrion 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: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.

Cytoplasm0.641

Rank 1 · LXL04_006662 · OH-1004

Nucleus0.407

Rank 2 · LXL04_006662 · OH-1004

Mitochondrion0.058

Rank 3 · LXL04_006662 · OH-1004

Endoplasmic reticulum0.035

Rank 4 · LXL04_006662 · OH-1004

Cell membrane0.030

Rank 5 · LXL04_006662 · 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_240-188 aa

PF22936.2Pol_BBD828-902 aa

PF13976.12gag_pre-integrs932-1003 aa

PF25597.2SH3_retrovirus1085-1132 aa

PF07727.20RVT_21323-1396 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_006662	`PF14223.15`	Retrotran_gag_2	40	188	4.4e-13	50.0
LXL04_006662	`PF22936.2`	Pol_BBD	828	902	9.6e-18	65.0
LXL04_006662	`PF13976.12`	gag_pre-integrs	932	1003	1.7e-13	50.9
LXL04_006662	`PF25597.2`	SH3_retrovirus	1085	1132	1.8e-13	50.8
LXL04_006662	`PF07727.20`	RVT_2	1323	1396	3.5e-17	63.5

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
`P92520`	Arabidopsis thaliana	Uncharacterized mitochondrial protein AtMg00820	41.441%	Swiss-Prot	weak database homology
`Q9ZT94`	Arabidopsis thaliana	Retrovirus-related Pol polyprotein from transposon RE2	42.453%	Swiss-Prot	weak database homology
`Q94HW2`	Arabidopsis thaliana	Retrovirus-related Pol polyprotein from transposon RE1	45.455%	Swiss-Prot	weak database homology

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