LXL04_016260 | RubberDandelionOmics

Gene overview

LXL04_016260

Reference: OH-1004 Chr: Chr03 Coordinates: 116787685-116794504 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

5718 bp · LXL04_016260|LXL04_016260|OH1004|cDNA

ATGCCACTCAACGATCCTTCATTATTCACAGCCTTAAAAGCCCAGATCCAAATCGGTGGGACTCCCCAAGTAAACACATTTCAAGCAACTTTCCACTACCAGATGGCCTACCGTGTCCAAAATCACTCATTGGATATCATGGTCCCAGGACAGGAAAATTCCGGTGATGCTCTATTTTTGGATGTAGATTCCAATGCTACTCCAACGTGCACCTATGTTCCAAGACAGTTATCCAGAGAGGAACTCCTAAAACTTCTTCC...

CDS

Download CDS FASTA

5718 bp · LXL04_016260|LXL04_016260|OH1004|CDS

ATGCCACTCAACGATCCTTCATTATTCACAGCCTTAAAAGCCCAGATCCAAATCGGTGGGACTCCCCAAGTAAACACATTTCAAGCAACTTTCCACTACCAGATGGCCTACCGTGTCCAAAATCACTCATTGGATATCATGGTCCCAGGACAGGAAAATTCCGGTGATGCTCTATTTTTGGATGTAGATTCCAATGCTACTCCAACGTGCACCTATGTTCCAAGACAGTTATCCAGAGAGGAACTCCTAAAACTTCTTCC...

Protein

Download Protein FASTA

1905 aa · LXL04_016260|LXL04_016260|OH1004|PROTEIN

MPLNDPSLFTALKAQIQIGGTPQVNTFQATFHYQMAYRVQNHSLDIMVPGQENSGDALFLDVDSNATPTCTYVPRQLSREELLKLLPDKWVTNYEQIHQAPVQSTTAPDFIRHANGQVEVKFSTHDSPQNHNIFPTVHMIQPTKLTLPNSDNHCWFDVCNCSDCLDDAFYMKYGEVLPRKQHELEELYDIGDPSVGLLGDPSGKFDYYVRYKGSPPEPDPCPQHKTLSPHLQQALSIIHKEQTSSSHSSTLSCYVISSDP...

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_016260`
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_016260`
Location	Chr03:116787685-116794504 (+)
Description	Similar to Genome polyprotein (Petunia vein clearing virus (isolate Shepherd)
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_016260` · GCA_047496595.1_OSU_TarKok_2.0.
GO annotations (OH1004 source)	GO:0006508 proteolysis Biological Process GO:0046740 transport of virus in host, cell to cell Biological Process GO:0003677 DNA binding Molecular Function GO:0003887 DNA-directed DNA polymerase activity 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	vg:1489542 vg:921337 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.

Cytoplasm0.585

Rank 1 · LXL04_016260 · OH-1004

Nucleus0.409

Rank 2 · LXL04_016260 · OH-1004

Mitochondrion0.135

Rank 3 · LXL04_016260 · OH-1004

Cell membrane0.049

Rank 4 · LXL04_016260 · OH-1004

Endoplasmic reticulum0.042

Rank 5 · LXL04_016260 · 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.

PF28884.1Gen_polyprot_petuvir588-666 aa

PF00098.29zf-CCHC849-864 aa

PF00078.33RVT_11199-1360 aa

PF17919.8RT_RNaseH_21423-1522 aa

PF17917.8RT_RNaseH1451-1554 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_016260	`PF28884.1`	Gen_polyprot_petuvir	588	666	1e-26	93.7
LXL04_016260	`PF00098.29`	zf-CCHC	849	864	2.7e-06	27.9
LXL04_016260	`PF00078.33`	RVT_1	1199	1360	1.4e-30	107.4
LXL04_016260	`PF17919.8`	RT_RNaseH_2	1423	1522	1.4e-19	70.7
LXL04_016260	`PF17917.8`	RT_RNaseH	1451	1554	8.7e-18	65.1

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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