LXL04_023213 | RubberDandelionOmics

Gene overview

LXL04_023213

Reference: OH-1004 Chr: Chr05 Coordinates: 27027230-27036676 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

3522 bp · LXL04_023213|LXL04_023213|OH1004|cDNA

atgcctccgaaacgacgcggacgacccaccggaacaggcggtgccccaccagtctttgaccccgtggccatggaggccatgatagctgcAAGGGTAGCAGATgccctagtagcttacgaacttgcGAACCCTAGAAATGGCAacggtggcggcggtggtgccgggggtgcaggaggaaacggcggaaacccgaggccgtgttcctataaagacttcatgaactgcaagccccacaatttcgcgggaaccggaggtgtcat...

CDS

Download CDS FASTA

3522 bp · LXL04_023213|LXL04_023213|OH1004|CDS

ATGCCTCCGAAACGACGCGGACGACCCACCGGAACAGGCGGTGCCCCACCAGTCTTTGACCCCGTGGCCATGGAGGCCATGATAGCTGCAAGGGTAGCAGATGCCCTAGTAGCTTACGAACTTGCGAACCCTAGAAATGGCAACGGTGGCGGCGGTGGTGCCGGGGGTGCAGGAGGAAACGGCGGAAACCCGAGGCCGTGTTCCTATAAAGACTTCATGAACTGCAAGCCCCACAATTTCGCGGGAACCGGAGGTGTCAT...

Protein

Download Protein FASTA

1173 aa · LXL04_023213|LXL04_023213|OH1004|PROTEIN

MPPKRRGRPTGTGGAPPVFDPVAMEAMIAARVADALVAYELANPRNGNGGGGGAGGAGGNGGNPRPCSYKDFMNCKPHNFAGTGGVIEMTRWFEKTESVFQISNCPVDSQWNTHVQTIGIVQANALTWGELKTMMIEEYCPRTELQKLEQELWNLAMQGSDITSYTNRFNELAALCPGMVTPMAKKIERYIWGLSSQIQNSVTAFNPLTYESVKSVAIRMTDQAVRNGTMVPKAEPSREQHKRKFWNSNNNNNSNSSNNN...

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_023213`
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_023213`
Location	Chr05:27027230-27036676 (+)
Description	Similar to pol: Retrovirus-related Pol polyprotein from transposon 17.6
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_023213` · GCA_047496595.1_OSU_TarKok_2.0.
GO annotations (OH1004 source)	GO:0006281 DNA repair Biological Process GO:0006310 DNA recombination Biological Process GO:0006313 DNA transposition 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:0042575 DNA polymerase complex Cellular Component GO:0003676 nucleic acid binding Molecular Function GO:0003677 DNA binding Molecular Function GO:0003723 RNA binding Molecular Function
KEGG gene cross-reference	sce:YGR109W-B sce:YIL082W-A 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.

Cytoplasm0.659

Rank 1 · LXL04_023213 · OH-1004

Nucleus0.356

Rank 2 · LXL04_023213 · OH-1004

Mitochondrion0.093

Rank 3 · LXL04_023213 · OH-1004

Cell membrane0.058

Rank 4 · LXL04_023213 · OH-1004

Endoplasmic reticulum0.050

Rank 5 · LXL04_023213 · 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.

PF00098.29zf-CCHC360-377 aa

PF08284.17RVP_2383-498 aa

PF30863.1PRO_PEG10-RTL1414-497 aa

PF00078.33RVT_1747-835 aa

PF17919.8RT_RNaseH_2899-993 aa

PF17917.8RT_RNaseH926-1023 aa

PF17921.8Integrase_H2C21115-1168 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_023213	`PF00098.29`	zf-CCHC	360	377	3.9e-06	27.4
LXL04_023213	`PF08284.17`	RVP_2	383	498	5.8e-23	81.9
LXL04_023213	`PF30863.1`	PRO_PEG10-RTL1	414	497	1.7e-09	38.8
LXL04_023213	`PF00078.33`	RVT_1	747	835	1.9e-21	77.6
LXL04_023213	`PF17919.8`	RT_RNaseH_2	899	993	1.1e-29	103.1
LXL04_023213	`PF17917.8`	RT_RNaseH	926	1023	5.3e-33	114.0
LXL04_023213	`PF17921.8`	Integrase_H2C2	1115	1168	5.6e-17	62.4

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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