LXL04_010075 | RubberDandelionOmics

Gene overview

LXL04_010075

Reference: OH-1004 Chr: Chr02 Coordinates: 139377278-139379602 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

774 bp · LXL04_010075|LXL04_010075|OH1004|cDNA

ATGTATTCGTTAATTCAATCTTCTTCTGATCTTAATTTCAAAGTCGTCATCATCGGAGACTCGGCGGTCGGCAAATCGAACCTGCTCTCTAGGTACGCTAGGAATGAGTTCAATATGCACTCTAAAGCCACCATCGGAGTCGAATTTCAGACGCAGACCATGGAGATCGACGACAAGGAGGTTAAGGCTAAGTATAAACCTCCAATCATGCCCATCGGCAAAGGCGCTTACGGCATAGAGACTATAGTTTCTCTTCAACG...

CDS

Download CDS FASTA

774 bp · LXL04_010075|LXL04_010075|OH1004|CDS

ATGTATTCGTTAATTCAATCTTCTTCTGATCTTAATTTCAAAGTCGTCATCATCGGAGACTCGGCGGTCGGCAAATCGAACCTGCTCTCTAGGTACGCTAGGAATGAGTTCAATATGCACTCTAAAGCCACCATCGGAGTCGAATTTCAGACGCAGACCATGGAGATCGACGACAAGGAGGTTAAGGCTAAGTATAAACCTCCAATCATGCCCATCGGCAAAGGCGCTTACGGCATAGAGACTATAGTTTCTCTTCAACG...

Protein

Download Protein FASTA

257 aa · LXL04_010075|LXL04_010075|OH1004|PROTEIN

MYSLIQSSSDLNFKVVIIGDSAVGKSNLLSRYARNEFNMHSKATIGVEFQTQTMEIDDKEVKAKYKPPIMPIGKGAYGIETIVSLQRLPQAGLMDLFDGRYVKSVIIGVGLMVCQQWGGINGIGFYASQIFETAGFSLGISGTIAYALIKIHVTIVGMILLDISGRRILLLVVNCKDELTQYYLMDCLIQPTVDIKTVLSLLMERLSSYAASSPEVLPEFLQVEAFSKLSSAIGKVQVLFELIKGLIKDEFCIFQID

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_010075`
TK1151 ID	TkA03G495300
OH-1004 ID	LXL04_010075
Relationship / confidence	Sequence Supported Annotation Or Model Conflict / Review
Protein identity (%)	99.300
Protein coverage (%)	TK1151 100.000 / OH-1004 56.809 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

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_010075

Location Chr02:139377278-139379602 (-)

Description Similar to RABA5D: Ras-related protein RABA5d

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g51310`	Plays a role in vesicular protein sorting.	No verified direct reference in this release
`At1g75850`	Plays a role in vesicular protein sorting.	Arabidopsis VPS35, a retromer component, is required for vacuolar protein sorting and involved in plant growth and leaf senescence.2008 · DOI: 10.1093/pcp/pcn006
`At2g31680`	Intracellular vesicle trafficking and protein transport.	No verified direct reference in this release
`At5g18840`	Sugar transporter.	No verified direct reference in this release
`At1g05810`	Intracellular vesicle trafficking and protein transport.	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_010075 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006886 intracellular protein transport Biological Process

GO:0042147 retrograde transport, endosome to Golgi Biological Process

GO:0055085 transmembrane transport Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005770 late endosome Cellular Component

GO:0005771 multivesicular body Cellular Component

GO:0005777 peroxisome Cellular Component

GO:0005794 Golgi apparatus Cellular Component

GO:0005829 cytosol Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0009507 chloroplast Cellular Component

KEGG gene cross-reference

ath:AT1G05810

ath:AT1G75850

ath:AT2G31680

ath:AT3G51310

ath:AT5G18840

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.

Endoplasmic reticulum0.364

Rank 1 · LXL04_010075 · OH-1004

Cell membrane0.255

Rank 2 · LXL04_010075 · OH-1004

Lysosome / Vacuole0.179

Rank 3 · LXL04_010075 · OH-1004

Cytoplasm0.121

Rank 4 · LXL04_010075 · OH-1004

Golgi apparatus0.107

Rank 5 · LXL04_010075 · 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.

PF00071.29Ras14-63 aa

PF08477.20Roc14-61 aa

PF00083.31Sugar_tr93-172 aa

PF03635.24Vps35167-190 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_010075	`PF00071.29`	Ras	14	63	2.7e-14	53.8
LXL04_010075	`PF08477.20`	Roc	14	61	3.6e-11	44.1
LXL04_010075	`PF00083.31`	Sugar_tr	93	172	5.2e-13	49.4
LXL04_010075	`PF03635.24`	Vps35	167	190	7.1e-09	35.5

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`A8R7K9`	Arabidopsis thaliana	Vacuolar protein sorting-associated protein 35C	61.957%	Swiss-Prot	weak database homology
`F4I0P8`	Arabidopsis thaliana	Vacuolar protein sorting-associated protein 35B	57.609%	Swiss-Prot	weak database homology
`Q9SIP0`	Arabidopsis thaliana	Ras-related protein RABA5d	88.462%	Swiss-Prot	weak database homology
`Q8LBI9`	Arabidopsis thaliana	Sugar transporter ERD6-like 16	44.118%	Swiss-Prot	moderate database homology
`P19892`	Arabidopsis thaliana	Ras-related protein RABA5e	82.692%	Swiss-Prot	weak database homology

JBrowse

View in Genome Browser

Gene Card