LXL04_039825 | RubberDandelionOmics

Gene overview

LXL04_039825

Reference: OH-1004 Chr: JAJTUU010000050.1 Coordinates: 42425-46888 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1698 bp · LXL04_039825|LXL04_039825|OH1004|cDNA

ATGATGAACATTTTGCGAAAAGACCCGGGGTTACCGACTGATTCGTTTTATGAGGTTCGAGCTGGCTTTTCCGATGGCCCAAAAACCAATTTTAGAATCAAGGCCGGAAAGACACTTAGTGAAAAAAGATGGCGGGCTTCATTTTCAGATGAAGGTTGTATTGATATAAGCAAGTGCCTTGGTAGAATCTATCGTGGAGTAAGTGTTCTTGATTTTGCTTATTCATACGATGAGGACAAGGAGGGTATTTACGGAGTTCA...

CDS

Download CDS FASTA

1698 bp · LXL04_039825|LXL04_039825|OH1004|CDS

ATGATGAACATTTTGCGAAAAGACCCGGGGTTACCGACTGATTCGTTTTATGAGGTTCGAGCTGGCTTTTCCGATGGCCCAAAAACCAATTTTAGAATCAAGGCCGGAAAGACACTTAGTGAAAAAAGATGGCGGGCTTCATTTTCAGATGAAGGTTGTATTGATATAAGCAAGTGCCTTGGTAGAATCTATCGTGGAGTAAGTGTTCTTGATTTTGCTTATTCATACGATGAGGACAAGGAGGGTATTTACGGAGTTCA...

Protein

Download Protein FASTA

565 aa · LXL04_039825|LXL04_039825|OH1004|PROTEIN

MMNILRKDPGLPTDSFYEVRAGFSDGPKTNFRIKAGKTLSEKRWRASFSDEGCIDISKCLGRIYRGVSVLDFAYSYDEDKEGIYGVHPSIRGEVWEILLGCYDHKSTFQEREQIRQRRRPEIDHPFRRKKSISQSTVLIPQSIFSIPQSILCHFDVRVSGANFAEGQSISQTGLRNAPYFCEMAPTKGISAVSQRHLCEMDFFSAKWTFSLQNGCLEQYAELKESCKKMFPIVGSGKFITARVITANGDLIHNPMEVLGT...

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_039825`
TK1151 ID	TkA05G088060
OH-1004 ID	LXL04_039825
Relationship / confidence	Non Reciprocal Best Hit / Complex relationship
Protein identity (%)	92.500
Protein coverage (%)	TK1151 19.417 / OH-1004 7.080 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_039825

Location JAJTUU010000050.1:42425-46888 (+)

Description Similar to Tbc1d15: TBC1 domain family member 15

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g53570`	Involved in defense response against fungal and bacterial pathogens.	RabGAP22 is required for defense to the vascular pathogen Verticillium longisporum and contributes to stomata immunity.2014 · DOI: 10.1371/journal.pone.0088187

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_039825 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006914 autophagy Biological Process

GO:0006952 defense response Biological Process

GO:0015031 protein transport Biological Process

GO:0016192 vesicle-mediated transport Biological Process

GO:0032889 regulation of vacuole fusion, non-autophagic Biological Process

GO:0042147 retrograde transport, endosome to Golgi Biological Process

GO:0043087 regulation of GTPase activity Biological Process

GO:0005576 extracellular region Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0005770 late endosome Cellular Component

KEGG gene cross-reference

ath:AT5G53570

cgr:2886868

hsa:64786

mmu:233204

mmu:66687

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.

Cytoplasm0.544

Rank 1 · LXL04_039825 · OH-1004

Nucleus0.328

Rank 2 · LXL04_039825 · OH-1004

Cell membrane0.128

Rank 3 · LXL04_039825 · OH-1004

Golgi apparatus0.108

Rank 4 · LXL04_039825 · OH-1004

Mitochondrion0.083

Rank 5 · LXL04_039825 · 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.

PF00566.26RabGAP-TBC265-438 aa

PF23436.2RabGap-TBC_2314-433 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_039825	`PF00566.26`	RabGAP-TBC	265	438	1.6e-36	126.7
LXL04_039825	`PF23436.2`	RabGap-TBC_2	314	433	4e-10	40.4

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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Protein	Organism	Description	Identity	Database	Confidence
`Q94BY9`	Arabidopsis thaliana	Rab GTPase-activating protein 22	43.902%	Swiss-Prot	weak database homology

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