YIPF4 Gene
protein-coding GIFtS: 48
GCID: GC02P032502
|
|
Yip1 domain family, member 4
| |
Aliases
for YIPF4 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| Yip1 Domain Family, Member 41 2 | | FinGER41 2 | | YIP1 Family Member 42 3 | | MGC110611 | | Protein YIPF42 | | Putative Protein Product Of Nbla111892 |
Export aliases for YIPF4 gene to outside databasesPrevious GC identifers: GC02P032416 GC02P032356 GC02P032242 |
Summaries
for YIPF4 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
UniProtKB/Swiss-Prot: YIPF4_HUMAN, Q9BSR8Function: Involved in the maintenance of the Golgi structure
Gene Wiki entry for YIPF4
|
Genomic Views
for YIPF4 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_000002.11 NC_018913.1 NT_022184.15
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the YIPF4 gene promoter:
MAZR RelA POU3F2 (N-Oct-5a) POU3F2 (N-Oct-5b) NF-kappaB POU3F2 HNF-4alpha1 c-Ets-1 CP2 NF-kappaB1
Other transcription factors
Search SABiosciences Chromatin IP Primers for YIPF4
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat YIPF4 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 2p22.3 Ensembl cytogenetic band: 2p22.3 HGNC cytogenetic band: 2p22.3YIPF4 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 2 GeneLoc Exon Structure GeneLoc location for GC02P032502: view genomic region
(about GC identifiers)
Start:
|
32,502,958 bp from pter |
End:
|
32,537,002 bp from pter |
Size:
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34,045 bases |
Orientation:
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plus strand |
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Proteins
for YIPF4 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: YIPF4_HUMAN, Q9BSR8 (See
protein sequence)Recommended Name: Protein YIPF4 Size: 244 amino acids; 27083 Da
Subunit: Interacts with YIPF3
Subcellular location: Golgi apparatus, cis-Golgi network membrane; Multi-pass membrane proteinExplore the universe of human proteins at neXtProt for YIPF4: NX_Q9BSR8
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q9BSR8
YIPF4 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_115688.1
ENSEMBL proteins: ENSP00000238831 ENSP00000394339 ENSP00000414267
Human Recombinant Protein Products:
Gene Ontology (GO): 3 cellular component terms (GO ID links to tree view): About this table
YIPF4 for ontologies About GeneDecksing
YIPF4 Antibody Products:
Assay Products for YIPF4: |
Protein
Domains /
Families
for YIPF4 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
YIPF4 for domains About GeneDecksing
1 InterPro domain/family:Graphical View of Domain Structure for InterPro Entry Q9BSR8ProtoNet protein and cluster: Q9BSR8 UniProtKB/Swiss-Prot: YIPF4_HUMAN, Q9BSR8Similarity: Belongs to the YIP1 family |
Function
for YIPF4 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: YIPF4_HUMAN, Q9BSR8Function: Involved in the maintenance of the Golgi structure
Clone
Products: |  | Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore | |  | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for YIPF4 (see all 4)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for YIPF4
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
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Synthesis Service for YIPF4 | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat YIPF4 |
In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for YIPF4 |
2 GenomeRNAi human phenotypes for YIPF4:
|
Pathways & Interactions
for YIPF4 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 YIPF4
STRING Interaction
Network Preview (showing 2 interactants - click image to see more details)
2 Interacting proteins for YIPF4 (Q9BSR82, 3 ENSP000002388314) via UniProtKB, MINT, STRING, and/or I2DAbout this table
|
Drugs & Compounds
for YIPF4 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 YIPF4
Search CenterWatch for drugs/clinical trials and news about YIPF4
|
Transcripts
for YIPF4 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 YIPF4 gene: NM_032312.3 Unigene Cluster for YIPF4: Yip1 domain family, member 4 Hs.468099 [show with all ESTs]Unigene Representative Sequence: NM_0323124 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000238831(uc002rok.3) ENST00000495355 ENST00000437765 ENST00000441084
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for YIPF4 (see all 4)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for YIPF4
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector: YIPF4 (NM_032312) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for YIPF4 | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat YIPF4 |
Additional cDNA sequence: AB072898.1 AK098486.1 BC004875.2 10 DOTS entries: DT.445375 DT.100786410 DT.95278781 DT.121019647 DT.86853571 DT.100786408 DT.121019649 DT.95278780 DT.95278782 DT.86995158 24/144 AceView cDNA sequences (see all 144): AI079278 CB123136 AI469999 AI554076 CK823051 AW572456 BQ100705 BU607528 AI738476 BE139521 BF594359 AA283121 CK823050 BC004875 CB148723 BG036183 BM760364 AA287059 AU279440 BQ100982 BG682213 AA223546 BP338222 AI911943
GeneLoc Exon Structure
5 Alternative Splicing Database (ASD) splice patterns (SP) for YIPF4 About this scheme
| ExUns: | 1a | · | 1b | · | 1c | ^ | 2 | ^ | 3a | · | 3b | ^ | 4 | ^ | 5a | · | 5b | ^ | 6a | · | 6b | · | 6c |
|---|
|
| SP1: | | | | | | | | | | | | | | | | | | | | | | | | | |
| SP2: | | | | | | | | | | | | | - | | | | | | | | | | | | |
| SP3: | | | | | | | - | | - | | - | | | | | | | | | | | | | | |
| SP4: | | | | | | | | | | | | | - | | | | | | | | | | | | |
| SP5: | | | | | | | | | - | | - | | | | | | | | | | | | | |
ECgene alternative splicing isoforms for YIPF4
|
Expression
for YIPF4 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
| YIPF4 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: CTTCGATACT
About this image
See YIPF4 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for YIPF4
SOURCE GeneReport for Unigene cluster: Hs.468099
SABiosciences Custom PCR Arrays for YIPF4
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for YIPF4
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse, rat YIPF4 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat YIPF4 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat YIPF4 | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for YIPF4 |
Orthologs
for YIPF4 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 YIPF4 gene from 7/26 species (see all 26) About this table
| Organism |
Taxonomic
classification |
Gene |
Description |
Human
Similarity |
Orthology
Type |
Details |
chicken
(Gallus gallus) |
Aves |
YIPF41 |
Yip1 domain family, member 4 |
84.29(n)
95.9(a) |
|
421464 NM_001031058.1 NP_001026229.1 |
lizard
(Anolis carolinensis) |
Reptilia |
YIPF46 |
-- |
77(a) |
1 ↔ 1 |
1(232077871-232090391) |
African clawed frog
(Xenopus laevis) |
Amphibia |
Xl.165522 |
Xenopus laevis transcribed sequence with strong similarity more |
74.74(n) |
|
CF289991.1 |
zebrafish
(Danio rerio) |
Actinopterygii |
Dr.61342 |
Transcribed sequence with moderate similarity to protein more |
77.09(n) |
|
CK028284.1 |
worm
(Caenorhabditis elegans) |
Secernentea |
CELE_Y60A3A.191 |
Protein Y60A3A.19 |
59.07(n)
53.95(a) |
|
180305 NM_001129584.1 NP_001123056.1 |
thale cress
(Arabidopsis thaliana) |
eudicotyledons |
AT2G188406AT4G302606 |
Yip1 integral membrane domain-containing protein |
16(a)16(a) |
many ↔ manymany ↔ many |
2(8158198-8160091) 4(14816622-14818854) |
rice
(Oryza sativa) |
Liliopsida |
---- |
Yip1 domain containing protein, expressed |
17(a)16(a) |
many ↔ manymany ↔ many |
1(37575844-37578066) 5(21365093-21369035) |
ENSEMBL Gene Tree for YIPF4 (if available)
TreeFam Gene Tree for YIPF4 (if available) |
Paralogs
for YIPF4 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for YIPF4 gene
- YIPF62
YIPF4 for paralogs About GeneDecksing
|
Genomic Variants
for YIPF4 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 2 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for YIPF4 (32502958 - 32537002 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 2 variations for YIPF4
2 CNVs: 58982 5203 | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing YIPF4 |
|
Disorders
/ Diseases
for YIPF4 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
|
YIPF4 for disorders About GeneDecksing
4  diseases for YIPF4: About MalaCardsdenys-drash syndrome carpal tunnel syndrome neuroblastoma malaria
1 disease from the University of Copenhagen DISEASES database for YIPF4:Skin sarcoidosis Export disorders for YIPF4 gene to outside databases
|
Publications
for YIPF4 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 YIPF4 gene, integrated from 9 sources (see all 18):
(articles sorted by number of sources associating them with YIPF4) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- Characterization of YIPF3 and YIPF4, cis-Golgi Locali zing Yip domain family proteins. (PubMed id 21757827)1, 2 Tanimoto K....Nakamura N. (2011)
- The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
- Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
- Neuroblastoma oligo-capping cDNA project: toward the understanding of the genesis and biology of neuroblastoma. (PubMed id 12880961)1, 2 Ohira M.... Nakagawara A. (2003)
- Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1, 3 Strausberg R.L....Marra M.A. (2002)
- Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
- Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
- Ubiquitin ligase substrate identification through qua ntitative proteomics at both the protein and peptide levels. (PubMed id 21987572)1 Lee K.A....Doedens J.R. (2011)
- Mass spectrometric analysis of lysine ubiquitylation r eveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (2011)
- A proteome-wide, quantitative survey of in vivo ubiqui tylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (2011)
|
External Searches for YIPF4 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing YIPF4 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing YIPF4 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing YIPF4 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 YIPF4 | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for YIPF4 gene:
Search GeneIP for patents involving YIPF4
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for YIPF4 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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variant library, vector shuttling | | | OriGene Custom Antibody Services for YIPF4 | | OriGene Custom Protein Services for YIPF4 | | | OriGene Custom Immunoassay Development | | |
| |
 |
 |
| | | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat YIPF4 | | | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing YIPF4 | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat YIPF4 | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat YIPF4 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat YIPF4 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat YIPF4 |
| |
 |  |  |  | |
| | | | Search Tocris compounds for YIPF4 |
| |  |  |  |  | | | | |
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 | | | YIPF4 Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for YIPF4 |
|  |  |  | | | | ThermoFisher Antibodies for YIPF4 |
| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat YIPF4 |
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