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Aliases & Descriptions for HPS4
(According to
1 HGNC ,
2 Entrez Gene ,
3 UniProtKB/Swiss-Prot ,
4 UniProtKB/TrEMBL , 5 OMIM , 6 GeneLoc
, and/or 7 Ensembl ,
8 miRBase )About This Section
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Aliases KIAA1667 1 , 2 , 3 LE 1 , 2 OTTHUMP00000028717 2 bK1048E9.4 2 bK1048E9.5 2
Descriptions Hermansky-Pudlak syndrome 4 2 Light-ear protein homolog 3 light ear protein 2
Search outside databases for aliases for HPS4 genePrevious GC identifers: GC22M023544 GC22M025172
Summaries for HPS4 (According to Entrez Gene ,
Wikipedia's
Gene Wiki ,
UniProtKB/Swiss-Prot ,
and/or
UniProtKB/TrEMBL )
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EntrezGene summary for HPS4 : Hermansky-Pudlak syndrome is a disorder of organelle biogenesis in which oculocutaneous albinism,bleeding, and pulmonary fibrosis result from defects of melanosomes, platelet dense granules, andlysosomes. Mutations in this gene as well as several others can cause this syndrome. The proteinencoded by this gene appears to be important in organelle biogenesis and is similar to the mouse'light ear' protein. Multiple transcript variants encoding different isoforms have beenfound for this gene. [provided by RefSeq] UniProtKB/Swiss-Prot: HPS4_HUMAN, Q9NQG7 Function : May function in the pathway of organelle biogenesis
Gene Wiki entry for HPS4
Genomic Location for HPS4
(According to
GeneLoc and/or
HGNC , and/or
Entrez Gene (NCBI build 36) ,
and/or miRBase ,
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Transcription factor binding sites according to
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Genomic View : UCSC Golden Path with GeneCards custom track Transcription factor binding sites upstream to the HPS4 gene Entrez Gene cytogenetic band: 22cen-q12.3 Ensembl cytogenetic band: 22q12.1 HGNC cytogenetic band: 22cen-q12.3 HPS4 Gene in genomic location: bands according to Ensembl, locations according to
(and/or Entrez Gene and/or Ensembl if different) GeneLoc gene densities for chromosome 22 GeneLoc Exon Structure
GeneLoc location for GC22M025177:
(about GC identifiers )
Start:
25,177,446 bp from pter
End:
25,209,820 bp from pter
Size:
32,375 bases
Orientation:
minus strand
RefSeq DNA sequence: NC_000022.9 NT_011520.11 Proteins for HPS4
(According to
1 UniProtKB ,
and/or Ensembl ,
Phosphorylation sites according to 2 Phosphosite ,
RefSeq according to NCBI ,
PDB rendering according to OCA and/or Proteopedia ,
Recombinant Proteins
from Invitrogen ,
Millipore ,
Sigma-Aldrich ,
R&D Systems ,
Enzo Life Sciences ,
Abnova ,
OriGene and/or,
Abcam ,
Biochemical Assays by
Invitrogen ,
Millipore ,
R&D Systems ,
Cell Signaling Technology , and/or
Enzo Life Sciences ,
Ontologies according to Gene
Ontology Consortium 01 Apr 2009 and
Entrez Gene ,
Antibodies by Invitrogen ,
Millipore ,
Sigma-Aldrich ,
R&D Systems ,
Cell Signaling Technology ,
Abcam ,
Abnova , and/or
Novus Biologicals )
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UniProtKB/Swiss-Prot: HPS4_HUMAN, Q9NQG7 (See
protein sequence )Recommended Name: Hermansky-Pudlak syndrome 4 protein Size : 708 amino acids; 76919 Da
Sequence caution : Sequence=BAB33337.1; Type=Frameshift; Positions=237; Sequence=BAB33337.1;Type=Miscellaneous discrepancy; Note=Intron retention; Sequence=BC035614; Type=Miscellaneousdiscrepancy; Note=Intron retention;
Secondary accessions : B1AHQ4 Q5H8V6 Q96LX6 Q9BY93 Q9UH37 Q9UH38Alternative splicing : 4 isoforms : Q9NQG7-1 Q9NQG7-2 Q9NQG7-3 Q9NQG7-4
Post-translational modifications:
View phosphorylation sites using PhosphoSite 2
REFSEQ proteins (2 alternative transcripts):
NP_071364.4 NP_690054.1 ENSEMBL proteins: ENSP00000338457 ENSP00000381213 ENSP00000381210 ENSP00000384185 ENSP00000325840 Human Recombinant Proteins               OriGene Purified Recombinant Human Protein: HPS4 5 Gene Ontology (GO) cellular component terms (links to tree view) :
About this table Antibodies for HPS4: Assays for HPS4:
Protein
Domains/ Families for HPS4(According to InterPro , ProtoNet ,
UniProtKB , and/or BLOCKS ,
Sets of similar genes according to GeneDecks )
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ProtoNet protein and cluster: Q9NQG7
Gene Function for HPS4
(According to MGI Jun 06 2009, UniProtKB ,
IUBMB ,and/or Genatlas ,
shRNA from
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Cell-based Assays from Millipore ,
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Entrez Gene .)
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               OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 5 ): NM_022081 Applied Biosystems Silencer ® siRNAs for HPS4 Sigma-Aldrich siRNA for HPS4 Sigma-Aldrich shRNA for HPS4 Explore Sigma-Aldrich super-pooled esiRNAs                OriGene GFP tagged cDNA clones in CMV expression vector (see all 2 ): NM_022081                                  Myc/DDK tagged cDNA clones in CMV expression vector (see all 2 ): NM_022081                                  untagged cDNA clones in CMV expression vector (see all 3 ): NM_022081  Primers: Browse
Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers               OriGene genome-wide validated SYBR primer pairs: NM_022081 UniProtKB/Swiss-Prot: HPS4_HUMAN, Q9NQG7 Function : May function in the pathway of organelle biogenesis
10 MGI mutant phenotypes (inferred from 1 allele ) (MGI details for Hps4) :1 Gene Ontology (GO) molecular function term (links to tree view) :
GO ID Qualified GO term Evidence PubMed IDs GO:0042803 protein homodimerization activity
IPI 12663659
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Pathways & Interactions for HPS4
(Pathways according to Invitrogen
(maps by GeneGo ),
Millipore ,
Cell Signaling Technology ,
Sigma-Aldrich ,
KEGG
and/or UniProtKB ,
Sets of similar genes according to GeneDecks ,
Proteins Network according to
SABiosciences ,
Interactions according to 1 UniProtKB ,
2 MINT , and/or
3 STRING ,
with links to IntAct and
Ensembl ,
Ontologies according to Gene Ontology Consortium 01 Apr 2009 via
Entrez Gene .)
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Gene Network CentralTM Interacting Genes and Proteins Network for HPS4 5/9 Interacting proteins for HPS4 (Q9NQG7 1 ENSP00000338457 3 ) via UniProtKB, MINT, and/or STRING (see all 9
)About this table 5 Gene Ontology (GO) biological process terms (links to tree view) :
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Drugs & Compounds for HPS4 (Chemical Compounds according to UniProtKB , Enzo Life Sciences ,
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Novoseek and Drugs according to
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PharmGKB )
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Browse Tocris compounds for HPS4
Transcripts for HPS4(GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 219 Homo sapiens; Jun 2 2009) or GenBank , RefSeq according to Entrez Gene ,
DOTS (version 10), and/or
AceView ,
non coding RNAs according to
RNAdb ,
ESTs according to GeneTide ,
exon structure from GeneLoc ,
alternative splicing isoforms according to ASD and/or
ECgene ,
RNAi Products from Invitrogen ,
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               OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 5 ): NM_022081 Sigma-Aldrich siRNA for HPS4 Sigma-Aldrich shRNA for HPS4 Explore Sigma-Aldrich super-pooled esiRNAs
Applied Biosystems Silencer ® siRNAs: NM_022081 NM_152841
REFSEQ mRNAs for HPS4 gene (2 alternative transcripts): NM_022081.4 NM_152841.1
Applied Biosystems TaqMan ® Gene Expression Assays: NM_022081 NM_152841
               OriGene GFP tagged cDNA clones in CMV expression vector (see all 2 ): NM_022081                                  Myc/DDK tagged cDNA clones in CMV expression vector (see all 2 ): NM_022081                                  untagged cDNA clones in CMV expression vector (see all 3 ): NM_022081  
Additional cDNA sequence: AK054717.1 AK057648.1 AK095406.1 AK097529.1 AK123691.1 AK290211.1 AL365512.1 AL713795.1 AY043416.1 BC035614.1 BC050285.1 BC065030.1 CR456392.1 CR601317.1
24/26 DOTS entries (see all 26
): DT.100732145 DT.75120241 DT.120665885 DT.100785566 DT.100785565 DT.91742410 DT.100785567 DT.100773633 DT.100785568 DT.408739 DT.120665922 DT.91874162 DT.95353765 DT.101975758 DT.120665936 DT.120665941 DT.120665973 DT.91742414 DT.95156232 DT.97840583 DT.120665895 DT.120665933 DT.120665983 DT.91742411
24/268 AceView cDNA sequences (see all 268
):Z40194 AA722569 NM_152840 BU617290 BM557146 AW629829 NM_152842 AA356313 AI961869 AA743323 AA558197 BM672973 NM_152843 BG575559 T16561 AL365512 CK429971 AI076395 BQ787594 BQ220346 AY043416 AW027864 BX108547 AI801578
highest scoring ESTs for HPS4 :AA558958 AL041451 AL704824 AL713795 BC050285 BG259515 BG720668 BG722751 BG773061 BG943448
Unigene Cluster for HPS4: Hermansky-Pudlak syndrome 4 Hs.474436 [show with all ESTs ] Unigene Representative Sequence: NM_022081 GeneLoc Exon Structure 5/12 Alternative Splicing Database (ASD) splice patterns (SP) for HPS4 (see all 12
) ExUns: 1a · 1b · 1c · 1d · 1e · 1f · 1g ^ 2 ^ 3a · 3b · 3c ^ 4a · 4b · 4c · 4d · 4e · 4f ^ 5 ^ 6a · 6b ^ 7a · 7b ^ 8 ^ 9 ^ 10 ^ 11 ^ SP1 :                                     -         -         SP2 :                                     -         -         SP3 :                                                     SP4 :                                     -         -         SP5 :                                             -       -  
ExUns: 12 ^ 13 ^ 14a · 14b ^ 15 ^ 16 ^ 17 ^ 18 ^ 19a · 19b · 19c ^ 20 SP1 : -             -             SP2 :                         SP3 :             -             SP4 :         -   -   -             SP5 : -   -   -   -                  
About this scheme ECgene alternative splicing isoforms for HPS4 5 Ensembl transcripts including schematic representations : ENST00000336873
ENST00000398145
ENST00000398141
ENST00000402105
ENST00000312736
Expression for HPS4
(Experimental results according to
1 GeneNote
and GNF BioGPS ,
probe sets-to-genes annotations according to
2 GeneAnnot ,
3 GeneTide ,
Sets of similar genes according to GeneDecks ,
Electronic Northern calculations according to data from
UniGene (Build 219 Homo sapiens),
SAGE tags according to
CGAP ,
plus additional links to
SOURCE , and/or
GNF
BioGPS , and/or
EXPOLDB , and/or
UniProtKB ,
Expression Assays from
Applied Biosystems
)
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HPS4 expression in normal and diseased human tissues Applied Biosystems TaqMan ® Gene Expression Assays for HPS4 1 / 2 / 3
8 probe-sets matching HPS4 gene Data from
(Publications) and GNF BioGPS About these images About these images CGAP SAGE TAG: TCAGTGAACTSOURCE GeneReport for Unigene cluster: Hs.474436
Orthologs for HPS4
(Orthologs according to
1,2 HomoloGene (2 older version, for species not in 1 newer version),
3 euGenes ,
4 SGD
and/or
5 MGI Jun 06 2009,
with possible further links to
Flybase
and/or
WormBase ,
Gene Trees according to Ensembl )
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Orthologs for HPS4 gene from 5/9 species (see all 9
)
About this table Species with no ortholog for HPS4 ENSEMBL Gene Tree for HPS4 Paralogs for HPS4 (Paralogs according to 1 HomoloGene and 2 Ensembl , Pseudogenes according to 3 Pseudogene.org )About This Section
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--
SNPs/Variants for HPS4 (According to the
1 NCBI SNP Database ,
2 Ensembl ,
3 PupaSUITE , and
UniProtKB ,
Linkage Disequilibrium by HapMap ,
Genotyping Reagents from
Applied Biosystems )
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HapMap Linkage Disequilibrium images for HPS4 (up to first 250kb)
Disorders & Mutations for HPS4
(in which this Gene is Involved, According to
OMIM, UniProtKB ,
Novoseek , PharmGKB ,
Genatlas , GeneTests ,
Blood group antigen gene mutations by BGMUT ,
HGMD, GAD ,
HuGE Navigator ,
BCGD ,
and/or TGDB .)
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OMIM: 606682 disorders : 203300 UniProtKB/Swiss-Prot: HPS4_HUMAN, Q9NQG7
Defects in HPS4 are the cause of Hermansky-Pudlak syndrome type 4 (HPS4) [MIM:203300].Hermansky-Pudlak syndrome (HPS) is a genetically heterogeneous, rare, autosomal recessive disordercharacterized by oculocutaneous albinism, bleeding due to platelet storage pool deficiency, andlysosomal storage defects. This syndrome results from defects of diverse cytoplasmic organellesincluding melanosomes, platelet dense granules and lysosomes. Ceroid storage in the lungs isassociated with pulmonary fibrosis, a common cause of premature death in individuals with HPS
1 Novoseek disease relationship for HPS4 gene
About this table 1 PharmGKB disease relationship for HPS4 gene About this table GeneTests: HPS4 Hermansky-Pudlak Syndrome Human Gene Mutation Database : HPS4 Human Genome Epidemiology Navigator: HPS4 (2 documents)
Medical News for HPS4 (Possibly Related Articles in
Doctor's Guide )
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Publications for HPS4 (in
PubMed .
Associations of this gene to articles via
1 Novoseek ,
2 HGNC ,
3 Entrez Gene ,
4 UniProtKB/Swiss-Prot ,
5 UniProtKB/TrEMBL ,
6 GAD , and/or
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10/25 PubMed articles for HPS4 gene (see all 25
): Hermansky-Pudlak syndrome is caused by mutations in HPS4, the human homolog of the mouse light-ear gene. (PubMed id 11836498) 1, 2, 3, 4 Suzuki T.... Spritz R.A. (2002) The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334) 3, 4 Gerhard D.S....Malek J. (2004) Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039) 3, 4 Ota T....Sugano S. (2004) The Hermansky-Pudlak syndrome 1 (HPS1) and HPS4 proteins are components of two complexes, BLOC-3 and BLOC-4, involved in the biogenesis of lysosome-related organelles. (PubMed id 12663659) 2, 3 Chiang P.W....Spritz R.A. (2003) Reevaluating human gene annotation: a second-generation analysis of chromosome 22. (PubMed id 12529303) 3, 4 Collins J.E....Dunham I. (2003) Identification of novel transcribed sequences on human chromosome 22 by expressed sequence tag mapping. (PubMed id 11258795) 3, 4 Hirosawa M....Ohara O. (2001) The DNA sequence of human chromosome 22. (PubMed id 10591208) 3, 4 Dunham I....O'Brien K.P. (1999) BLOC-3, a protein complex containing the Hermansky-Pudlak syndrome gene products HPS1 and HPS4. (PubMed id 12756248) 1, 3 Martina J.A....Bonifacino J.S. (2003) Hermansky-Pudlak syndrome type 4 (HPS-4): clinical and molecular characteristics. (PubMed id 12664304) 1, 3 Anderson P.D....Gahl W.A. (2003) Comprehensive Analysis of Oculocutaneous Albinism among Non-Hispanic Caucasians Shows that OCA1 Is the Most Prevalent OCA Type. (PubMed id 18463683) 1, 3 Hutton S.M. and Spritz R.A. (2008)
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Genome Databases showing HPS4
(According to
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AceView ,
euGenes ,
Ensembl ,
miRBase ,
ECgene ,
and/or
H-InvDB )
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Other Databases showing HPS4
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Specialized Databases showing HPS4 (According to ATLAS , HORDE , IMGT , MTDB, LEIDEN , UniProtKB/Swiss-Prot , and/or UniProtKB/TrEMBL ,Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot )About This Section
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Name Description
Albinism database (ADB) http://www.cbc.umn.edu/tad/ Mutations of the HPS4 gene http://www.retina-international.com/sci-news/lemut.htm GeneReviews http://www.genetests.org/query?gene=HPS4
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-- Services for HPS4 (Reagents available from Applied Biosystems , Antibodies and assays by Cell
Signaling Technology , Abcam , Novus Biologicals ,Sigma-Aldrich , R&D Systems , Millipore , Abnova , and/or Invitrogen , Clones available from OriGene ,and/or Invitrogen , Drugs and/or compounds by Sigma-Aldrich , Enzo Life Sciences , and/or Tocris Bioscience )About This Section
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