LXL04_004897 | RubberDandelionOmics

Gene overview

LXL04_004897

Reference: OH-1004 Chr: Chr01 Coordinates: 149822898-149824414 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

654 bp · LXL04_004897|LXL04_004897|OH1004|cDNA

ATGGCTGCTCCACCAGCCAGAGCTCGAGCGGATTACGATTACCTCATTAAGCTTCTTTTAATCGGCGACAGTGGTGTTGGTAAGAGTTGTCTCCTTTTACGTTTCTCAGATGGTTCCTTCACCACTAGTTTCATTACAACCATAGGTATTGATTTTAAGATAAGGACCATTGAGCTTGATGGAAAACGAATCAAACTACAAATCTGGGACACTGCTGGCCAAGAACGATTCAGAACAATCACAACTGCATATTACCGTGG...

CDS

Download CDS FASTA

654 bp · LXL04_004897|LXL04_004897|OH1004|CDS

ATGGCTGCTCCACCAGCCAGAGCTCGAGCGGATTACGATTACCTCATTAAGCTTCTTTTAATCGGCGACAGTGGTGTTGGTAAGAGTTGTCTCCTTTTACGTTTCTCAGATGGTTCCTTCACCACTAGTTTCATTACAACCATAGGTATTGATTTTAAGATAAGGACCATTGAGCTTGATGGAAAACGAATCAAACTACAAATCTGGGACACTGCTGGCCAAGAACGATTCAGAACAATCACAACTGCATATTACCGTGG...

Protein

Download Protein FASTA

217 aa · LXL04_004897|LXL04_004897|OH1004|PROTEIN

MAAPPARARADYDYLIKLLLIGDSGVGKSCLLLRFSDGSFTTSFITTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDVTDESSFNNIRNWIRNIEQHASDNVNKILVGNKADMDESKRAVPTSKGQALADEYGIKFFETSAKTNMNVEEVFFSIARDIKHRLSESDSKPEPQTIKINQADQGAGTSSSQGGGSSSCCG

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_004897`
TK1151 ID	TkA01G098470
OH-1004 ID	LXL04_004897
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	96.900
Protein coverage (%)	TK1151 100.000 / OH-1004 100.000 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_004897

Location Chr01:149822898-149824414 (+)

Description Similar to RABE1A: Ras-related protein RABE1a

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g53610`	Involved in membrane trafficking from the Golgi to the plasma membrane.	No verified direct reference in this release
`At3g46060`	Involved in membrane trafficking from the Golgi to the plasma membrane.	No verified direct reference in this release
`At5g03520`	Involved in membrane trafficking from the Golgi to the plasma membrane.	No verified direct reference in this release
`At3g09900`	Involved in membrane trafficking from the Golgi to the plasma membrane.	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_004897 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006887 exocytosis Biological Process

GO:0009873 ethylene-activated signaling pathway Biological Process

GO:0015031 protein transport Biological Process

GO:0000139 Golgi membrane Cellular Component

GO:0000325 plant-type vacuole Cellular Component

GO:0005829 cytosol Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0016020 membrane Cellular Component

GO:0003924 GTPase activity Molecular Function

GO:0005525 GTP binding Molecular Function

KEGG gene cross-reference

ath:AT3G09900

ath:AT3G46060

ath:AT3G53610

ath:AT5G03520

bvg:104900163

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

Open Annotation Module

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 apparatus0.505

Rank 1 · LXL04_004897 · OH-1004

Cytoplasm0.496

Rank 2 · LXL04_004897 · OH-1004

Cell membrane0.178

Rank 3 · LXL04_004897 · OH-1004

Endoplasmic reticulum0.156

Rank 4 · LXL04_004897 · OH-1004

Lysosome / Vacuole0.148

Rank 5 · LXL04_004897 · 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.

PF00025.28Arf16-170 aa

PF00071.29Ras17-178 aa

PF08477.20Roc17-131 aa

PF00009.34GTP_EFTU49-173 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_004897	`PF00025.28`	Arf	16	170	1.7e-15	57.7
LXL04_004897	`PF00071.29`	Ras	17	178	1.9e-68	229.8
LXL04_004897	`PF08477.20`	Roc	17	131	4.3e-35	121.2
LXL04_004897	`PF00009.34`	GTP_EFTU	49	173	2.6e-07	31.1

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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Protein	Organism	Description	Identity	Database	Confidence
`O24466`	Arabidopsis thaliana	Ras-related protein RABE1a	90.338%	Swiss-Prot	strong database homology
`P28186`	Arabidopsis thaliana	Ras-related protein RABE1c	89.855%	Swiss-Prot	strong database homology
`Q9LZD4`	Arabidopsis thaliana	Ras-related protein RABE1d	84.259%	Swiss-Prot	strong database homology
`Q9SF91`	Arabidopsis thaliana	Ras-related protein RABE1e	85.116%	Swiss-Prot	strong database homology

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