LXL04_019200 | RubberDandelionOmics

Gene overview

LXL04_019200

Reference: OH-1004 Chr: Chr04 Coordinates: 26363423-26364094 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

672 bp · LXL04_019200|LXL04_019200|OH1004|cDNA

ATGATGGCCGCACCATCGCCGGCGATCCTCCCCGTTTCAAACGGAAAAACAGCAGCAGCTCCCGCAGAGGAATCCCAGCCTCCCGTCGCCACGCCTGCCGTccgagcattcatcaatcacaTAACCAATACCGTTCGGTCTGGTCTCTCCGAACGCCGTCCATGGTCCGAACTCGCCGACCGTTCCGCCTTCTCCAAACCTGAATCCGTTTCCGACGCTACAACACGGATCAGAAAGAACTACGCATATTTTCGGATCAA...

CDS

Download CDS FASTA

672 bp · LXL04_019200|LXL04_019200|OH1004|CDS

ATGATGGCCGCACCATCGCCGGCGATCCTCCCCGTTTCAAACGGAAAAACAGCAGCAGCTCCCGCAGAGGAATCCCAGCCTCCCGTCGCCACGCCTGCCGTCCGAGCATTCATCAATCACATAACCAATACCGTTCGGTCTGGTCTCTCCGAACGCCGTCCATGGTCCGAACTCGCCGACCGTTCCGCCTTCTCCAAACCTGAATCCGTTTCCGACGCTACAACACGGATCAGAAAGAACTACGCATATTTTCGGATCAA...

Protein

Download Protein FASTA

223 aa · LXL04_019200|LXL04_019200|OH1004|PROTEIN

MMAAPSPAILPVSNGKTAAAPAEESQPPVATPAVRAFINHITNTVRSGLSERRPWSELADRSAFSKPESVSDATTRIRKNYAYFRINYFTVVAAVIGISLLTNPFSLITLLALLAAWIFLYLFRPTEPPLVVFGRAFSERETLGMLIVLSIIVVFLTSVGSILISAVLVGSGIVCAHGAFRAPEDLFLDEQEPVGATGFLSLLGGAASNAAASAAPVIAPIRA

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_019200`
TK1151 ID	TkA05G029260
OH-1004 ID	LXL04_019200
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	87.400
Protein coverage (%)	TK1151 100.000 / OH-1004 99.552 Coverage and evidence Coverage is the aligned span of the best-scoring HSP divided by representative protein length. A homolog match does not establish functional validation.
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_019200

Location Chr04:26363423-26364094 (+)

Description Similar to PRA1B4: PRA1 family protein B4

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g38360`	May be involved in both secretory and endocytic intracellular trafficking in the endosomal/prevacuolar compartments.	No verified direct reference in this release
`At5g01640`	May be involved in both secretory and endocytic intracellular trafficking in the endosomal/prevacuolar compartments.	No verified direct reference in this release
`At3g56110`	May be involved in both secretory and endocytic intracellular trafficking in the endosomal/prevacuolar compartments.	No verified direct reference in this release
`At5g05380`	May be involved in both secretory and endocytic intracellular trafficking in the endosomal/prevacuolar compartments.	No verified direct reference in this release
`At2g40380`	May be involved in both secretory and endocytic intracellular trafficking in the endosomal/prevacuolar compartments.	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_019200 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0016192 vesicle-mediated transport Biological Process

GO:0000138 Golgi trans cisterna Cellular Component

GO:0005768 endosome Cellular Component

GO:0005783 endoplasmic reticulum Cellular Component

GO:0005794 Golgi apparatus Cellular Component

GO:0005802 trans-Golgi network Cellular Component

GO:0005829 cytosol Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0010008 endosome membrane Cellular Component

KEGG gene cross-reference

ath:AT2G38360

ath:AT2G40380

ath:AT3G56110

ath:AT5G01640

ath:AT5G05380

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.

Golgi apparatus0.377

Rank 1 · LXL04_019200 · OH-1004

Endoplasmic reticulum0.297

Rank 2 · LXL04_019200 · OH-1004

Cytoplasm0.260

Rank 3 · LXL04_019200 · OH-1004

Cell membrane0.171

Rank 4 · LXL04_019200 · OH-1004

Lysosome / Vacuole0.116

Rank 5 · LXL04_019200 · 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.

PF03208.25PRA148-191 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_019200	`PF03208.25`	PRA1	48	191	1.7e-50	171.0

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
`O80915`	Arabidopsis thaliana	PRA1 family protein B4	67.633%	Swiss-Prot	strong database homology
`Q9M012`	Arabidopsis thaliana	PRA1 family protein B5	56.667%	Swiss-Prot	strong database homology
`Q9LYN0`	Arabidopsis thaliana	PRA1 family protein B1	55.556%	Swiss-Prot	strong database homology
`Q9FLB6`	Arabidopsis thaliana	PRA1 family protein B3	58.621%	Swiss-Prot	strong database homology
`Q9SIY7`	Arabidopsis thaliana	PRA1 family protein B2	55.500%	Swiss-Prot	strong database homology

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