TBC1D25 Gene
protein-coding GIFtS: 48
GCID: GC0XP048397
|
|
TBC1 domain family, member 25(Previous name: ornithine aminotransferase-like 1 )
(Previous symbol: OATL1)
| |
Aliases
for TBC1D25 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| TBC1 Domain Family, Member 251 2 | | OATL11 2 3 5 | | Ornithine Aminotransferase-Like 11 2 | | 5SN3 SnoRNA2 | | MG812 | | TBC1 Domain Family Member 252 |
Export aliases for TBC1D25 gene to outside databasesPrevious GC identifers: GC0XP048283 GC0XP046061 |
Summaries
for TBC1D25 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
Entrez Gene summary for TBC1D25:
This gene encodes a protein with a TBC domain and may function as a Rab GTPase activating protein. This gene waspreviously known as ornithine aminotransferase-like 1, but has no similarity to ornithine aminotransferase. (providedby RefSeq, Jul 2008)
UniProtKB/Swiss-Prot: TBC25_HUMAN, Q3MII6Function: Acts as a GTPase-activating protein specific for RAB33B. Involved in the regulation of autophagosomematuration, the process in which autophagosomes fuse with endosomes and lysosomes
|
Genomic Views
for TBC1D25 gene
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to
UCSC (hg19) and
Ensembl (release 69),
Regulatory elements and Epigenetics data according to
QIAGEN,
SABiosciences, and/or
SwitchGear Genomics)
About This Section
| RefSeq DNA sequence:- NC_000023.10 NC_018934.1 NT_079573.4
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the TBC1D25 gene promoter:
HFH-3 AML1a C/EBPalpha FOXI1 PPAR-alpha CREB GATA-6 deltaCREB Pax-4a
Other transcription factors
Search SABiosciences Chromatin IP Primers for TBC1D25
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TBC1D25 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: Xp11.23 Ensembl cytogenetic band: Xp11.23 HGNC cytogenetic band: Xp11.23TBC1D25 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome X GeneLoc Exon Structure GeneLoc location for GC0XP048397: view genomic region
(about GC identifiers)
Start:
|
48,397,845 bp from pter |
End:
|
48,420,997 bp from pter |
Size:
|
23,153 bases |
Orientation:
|
plus strand |
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Proteins
for TBC1D25 gene
(According to
1UniProtKB,
HORDE,
neXtProt,
Ensembl,
and/or Reactome,
Modification sites according to 2PhosphoSitePlus,
Specific Peptides from DME,
Protein expression images according to data from SPIRE MOPED and PaxDb,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from
EMD Millipore,
R&D Systems,
GenScript,
Enzo Life Sciences,
OriGene,
Novus Biologicals,
Sino Biological,
ProSpec, and/or
Uscn,
Biochemical Assays by
EMD Millipore,
R&D Systems,
OriGene,
GenScript,
Cell Signaling Technology,
Enzo Life Sciences, and/or
Uscn,
Ontologies according to Gene
Ontology Consortium 01 Mar 2013 and
Entrez Gene,
Antibodies by
EMD Millipore,
R&D Systems,
GenScript,
Cell Signaling Technology,
OriGene,
Novus Biologicals,
Thermo Fisher Scientific,
Abcam, and/or
Uscn)
About This Section
|
UniProtKB/Swiss-Prot: TBC25_HUMAN, Q3MII6 (See
protein sequence)Recommended Name: TBC1 domain family member 25 Size: 688 amino acids; 76327 Da
Subunit: Interacts (via N-terminus) with MAP1LC3B, GABARAP and GABARAPL2
Subcellular location: Cytoplasm. Cytoplasmic vesicle, autophagosome. Note=It is dispersed in the cytoplasm undernutrient-rich conditions. Localizes at autophagosomes under cell starving conditions
Secondary accessions: Q08AN9 Q3MII4 Q8TAR9Alternative splicing: 2 isoforms: Q3MII6-1 Q3MII6-2 (No experimental confirmation available)Explore the universe of human proteins at neXtProt for TBC1D25: NX_Q3MII6
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q3MII6
TBC1D25 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_002527.1
ENSEMBL proteins: ENSP00000365962 ENSP00000402268 ENSP00000387764 ENSP00000444091
Human Recombinant Protein Products:
Gene Ontology (GO): 3 cellular component terms (GO ID links to tree view): About this table
TBC1D25 for ontologies About GeneDecksing
TBC1D25 Antibody Products:
Assay Products for TBC1D25: |
Protein
Domains /
Families
for TBC1D25 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
TBC1D25 for domains About GeneDecksing
1 InterPro domain/family:Graphical View of Domain Structure for InterPro Entry Q3MII6ProtoNet protein and cluster: Q3MII6 1 Blocks protein family: IPB000195 RabGAP/TBC domain
UniProtKB/Swiss-Prot: TBC25_HUMAN, Q3MII6Similarity: Contains 1 Rab-GAP TBC domain |
Function
for TBC1D25 gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase
shRNA from
OriGene,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
Function Summary:
UniProtKB/Swiss-Prot: TBC25_HUMAN, Q3MII6Function: Acts as a GTPase-activating protein specific for RAB33B. Involved in the regulation of autophagosomematuration, the process in which autophagosomes fuse with endosomes and lysosomes
Clone
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In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TBC1D25 |
Gene Ontology (GO): 3 molecular function terms (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0005097 | Rab GTPase activator activity |
IDA | -- | | GO:0005515 | protein binding |
IPI | -- | | GO:0008483 | transaminase activity |
-- | -- |
TBC1D25 for ontologies About GeneDecksing
1 GenomeRNAi human phenotype for TBC1D25:
|
Pathways & Interactions
for TBC1D25 gene
(Pathways according to
EMD Millipore,
R&D Systems,
Cell Signaling Technology,
KEGG,
PharmGKB,
BioSystems,
Reactome,
Tocris Bioscience,
GeneGo (Thomson Reuters),
QIAGEN,
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Interaction Networks according to
SABiosciences,
and/or STRING,
Interactions according to 1UniProtKB,
2MINT,
3I2D, and/or
4STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene).
About This Section
|
Interactions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for TBC1D25
STRING Interaction
Network Preview (showing 5 interactants - click image to see 7)
5/7 Interacting proteins for TBC1D25 (Q3MII63 ENSP000003659624) via UniProtKB, MINT, STRING, and/or I2D (see all 7)About this table
Gene Ontology (GO): 4 biological process terms (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0006914 | autophagy |
IEA | -- | | GO:0016242 | negative regulation of macroautophagy |
-- | -- | | GO:0032851 | positive regulation of Rab GTPase activity |
IDA | -- | | GO:1901096 | regulation of autophagic vacuole maturation |
IMP | -- |
TBC1D25 for ontologies About GeneDecksing
|
Drugs & Compounds
for TBC1D25 gene(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
EMD Millipore, Tocris Bioscience
HMDB,
BitterDB, and/or
Novoseek, and Drugs according to
DrugBank,
Enzo Life Sciences, and/or
PharmGKB, with drugs/clinical trials/news
search links to CenterWatch)
About This Section
|
 Browse Tocris compounds for TBC1D25
Search CenterWatch for drugs/clinical trials and news about TBC1D25 / TBC25
|
Transcripts
for TBC1D25 gene(Secondary structures according to
fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
transcript ids from Ensembl
with links to UCSC,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
shRNA from
OriGene,
microRNA from QIAGEN,
Tagged/untagged cDNA clones from
OriGene,
SwitchGear Genomics,
GenScript,
DNA2.0,
Vector BioLabs,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN
)
About This Section
|
REFSEQ mRNAs for TBC1D25 gene (2 alternative transcripts): NM_001006113.1 NM_002536.2 Unigene Cluster for TBC1D25: TBC1 domain family, member 25 Hs.694353 [show with all ESTs]Unigene Representative Sequence: NM_0025367 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000376771(uc004dka.1 uc011mly.1 uc004dkb.1 uc011mlz.1 uc011mma.1 uc004dkc.1 uc011mmb.1 uc011mmc.1 uc011mmd.1)
ENST00000481090 ENST00000494495 ENST00000476141 ENST00000418627 ENST00000427713
ENST00000537536
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for TBC1D25 (see all 4)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for TBC1D25
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
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Additional cDNA sequence: AB449912.1 AJ508600.1 AK293521.1 AK293875.1 AK294776.1 AK297924.1 AK298884.1 AK299561.1 AK316199.1 BC026050.1 BC036942.1 BC041614.1 BC052609.1 BC064334.1 BC082255.1 BC101817.1 BC101819.1 BC125088.1 BC125089.1 BC143395.1 L08240.1 8 DOTS entries: DT.100779009 DT.97858635 DT.108929 DT.100779000 DT.121315750 DT.121315760 DT.86858749 DT.92434493 24/155 AceView cDNA sequences (see all 155): C01849 AI057414 BC052609 CD519271 BQ651229 BU196101 AA293451 AW089388 BQ673117 BM680610 BX280004 BC041614 AW291613 BC082255 BE671227 BQ673865 CB155002 AW612031 CR592577 BQ669144 CA447032 AJ707405 CK299092 BU737793
GeneLoc Exon Structure
5/11 Alternative Splicing Database (ASD) splice patterns (SP) for TBC1D25 (see all 11) About this scheme
| ExUns: | 1a | · | 1b | · | 1c | · | 1d | · | 1e | ^ | 2 | ^ | 3a | · | 3b | ^ | 4 | ^ | 5 | ^ | 6 | ^ | 7a | · | 7b | ^ | 8a | · | 8b | · | 8c | · | 8d | ^ | 9a | · | 9b | · | 9c |
|---|
|
| SP1: | | | | | | | | | - | | - | | | | - | | - | | | | - | | | | | | | | | | | | | | | | | | | | |
| SP2: | | | | | | | | | - | | - | | | | - | | - | | - | | - | | | | | | | | | | | | | | | | | | | | |
| SP3: | | | | | | | | | | | - | | | | - | | - | | | | - | | - | | - | | | | | | | | | | | | | | | | |
| SP4: | | | | | | | | | - | | - | | - | | - | | - | | - | | - | | | | | | | | | | | | | | | | | | | | |
| SP5: | | | | | | | | | - | | - | | | | - | | - | | | | - | | - | | - | | | | | | | | | | | | | | | |
ECgene alternative splicing isoforms for TBC1D25
|
Expression
for TBC1D25 gene
(RNA expression data according to
H-InvDB,
NONCODE,
miRBase, and
RNAdb,
Expression images according to data from
BioGPS,
Illumina Human BodyMap, and
CGAP
SAGE,
Sets of similar genes according to GeneDecks,
in vivo and in vitro expression data from LifeMap Discovery™,
plus additional links to
Genevestigator, and/or
SOURCE, and/or
BioGPS, and/or
UniProtKB,
PCR Arrays from
SABiosciences,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN,
In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section
| TBC1D25 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: AGACCCCACC
About this image
See TBC1D25 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for TBC1D25
SOURCE GeneReport for Unigene cluster: Hs.694353
SABiosciences Custom PCR Arrays for TBC1D25
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for TBC1D25
Browse OriGene validated miRNA SYBR primer pairs
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Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TBC1D25 |
Orthologs
for TBC1D25 gene
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
,
5MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase,
and/or
6Ensembl pan taxonomic compara ,
Gene Trees according to Ensembl and
TreeFam)
About This Section
|
This gene was present in the common ancestor of eukaryotes.
Orthologs for TBC1D25 gene from 5/23 species (see all 23) About this table
ENSEMBL Gene Tree for TBC1D25 (if available)
TreeFam Gene Tree for TBC1D25 (if available) |
Paralogs
for TBC1D25 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for TBC1D25 gene
- SGSM12 TBC1D172 TBC1D212 SGSM22 TBC1D162 TBC1D152
3 SIMAP similar genes for TBC1D25 using alignment to 3 protein entries: TBC25_HUMAN (see all proteins):OATL1 DKFZp761D0223 TBC1D16
TBC1D25 for paralogs About GeneDecksing
1 Pseudogenes.org Pseudogene for TBC1D25
PGOHUM00000237278
|
Genomic Variants
for TBC1D25 gene(SNPs/Variants according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE,
UniProtKB, and
DNA2.0,
Linkage Disequilibrium by HapMap,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene
Mutation Database (HGMD) and the Locus Specific Mutation
Databases (LSDB), Blood group antigen gene mutations by BGMUT,
Resequencing Primers from QIAGEN,
Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
|
| Genomic Data | Transcription Related Data | Allele Frequencies | | SNP ID | Valid | Clinical
significance | Chr X pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for TBC1D25 (48397845 - 48420997 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 8 variations for TBC1D25
1 CNV: 7789
7 Indels: 96654 96655 96653 83504 83503 96656 96657 | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing TBC1D25 |
|
Disorders
/ Diseases
for TBC1D25 gene
(in which this Gene is Involved, According to MalaCards,
OMIM, UniProtKB,
the University of Copenhagen DISEASES
database,
Genatlas, GeneTests,
GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
|
TBC1D25 for disorders About GeneDecksing
OMIM gene information: 311240
OMIM disorders: --
7  diseases for TBC1D25: About MalaCardswiskott-aldrich syndrome papillary renal cell carcinoma renal cell carcinoma synovial sarcoma
mood disorder sarcoma carcinoma
Export disorders for TBC1D25 gene to outside databases
|
Publications
for TBC1D25 gene (in
PubMed.
Associations of this gene to articles via
1Entrez Gene,
2UniProtKB/Swiss-Prot,
3HGNC,
4GAD,
5PharmGKB,
6HMDB,
7DrugBank,
8UniProtKB/TrEMBL,
9 Novoseek, and/or
10fRNAdb)
About This Section
|
PubMed articles for TBC1D25 gene, integrated from 9 sources (see all 18):
(articles sorted by number of sources associating them with TBC1D25) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- OATL1, a novel autophagosome-resident Rab33B-GAP, reg ulates autophagosomal maturation. (PubMed id 21383079)1, 2 Itoh T....Fukuda M. (2011)
- Rab GTPase-activating proteins in autophagy: regulatio n of endocytic and autophagy pathways by direct binding to human ATG8 modifiers. (PubMed id 22354992)1 Popovic D....Dikic I. (2012)
- Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis. (PubMed id 20068231)2 Olsen J.V....Mann M. (2010)
- Association of polyaminergic loci with anxiety, mood disorders, and attempted suicide. (PubMed id 21152090)1 Fiori L.M....Turecki G. (2010)
- Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions. (PubMed id 19690332)2 Mayya V.... Han D.K. (2009)
- Identification and characterization of a novel Tre-2/Bub2/Cdc16 (TBC) protein that possesses Rab3A-GAP activity. (PubMed id 19077034)1 Ishibashi K.... Fukuda M. (2009)
- A quantitative atlas of mitotic phosphorylation. (PubMed id 18669648)2 Dephoure N.... Gygi S.P. (2008)
- Screening for target Rabs of TBC (Tre-2/Bub2/Cdc16) domain-containing proteins based on their Rab-binding activity. (PubMed id 16923123)1 Itoh T.... Fukuda M. (2006)
- Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (2006)
- FEZ1 dimerization and interaction with transcription regulatory proteins involves its coiled-coil region. (PubMed id 16484223)1 Assmann E.M.... Kobarg J. (2006)
|
External Searches for TBC1D25 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing TBC1D25 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing TBC1D25 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing TBC1D25 gene(According to PharmGKB,
ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
|
| Name | Description |
| PharmGKB entry for TBC1D25 | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for TBC1D25 gene:
Search GeneIP for patents involving TBC1D25
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for TBC1D25 gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences),
In Situ Hybridization Assays from
Advanced Cell Diagnostics
About This Section
|
 | |
 | |
 |
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