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RAB11FIP3 Gene

protein-coding   GIFtS: 53

GC16P000416
RAB11 family interacting protein 3 (class II)
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
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Aliases
EFERIN 5
Eferin 3
KIAA0665 1, 2, 3, 5
PAC196A12.1 2
Rab11-FIP3 1, 2, 3
eferin 1, 2
Descriptions
EF hands-containing Rab-interacting protein 3
RAB11 family interacting protein 3 (class II) 2
rab11-family interacting protein 3 2
External Ids
HGNC: 172241
Entrez Gene: 97272
UniProtKB: O751543
Ensembl: ENSG000000905657
Search outside databases for aliases for RAB11FIP3 gene

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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EntrezGene summary for RAB11FIP3:
Proteins of the large Rab GTPase family (see RAB1A; MIM 179508) have regulatory roles in the
formation, targeting, and fusion of intracellular transport vesicles. RAB11FIP3 is one of many
proteins that interact with and regulate Rab GTPases (Hales et al., 2001 [PubMed
11495908]).[supplied by OMIM]

Gene Wiki entry for RAB11FIP3
(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
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Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the RAB11FIP3 gene  

Entrez Gene cytogenetic band: 16p13.3   Ensembl cytogenetic band:  16p13.3   HGNC cytogenetic band: 16p13.3

RAB11FIP3 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 16         GeneLoc Exon Structure

GeneLoc location for GC16P000416:     (about GC identifiers)

Start:
415,669 bp from pter
End:
512,482 bp from pter
Size:
96,814 bases
Orientation:
plus strand
RefSeq DNA sequence:
NC_000016.8  NT_037887.4  
(According to 1UniProtKB, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, 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: RFIP3_HUMAN, O75154 (See protein sequence)
Recommended Name: Rab11 family-interacting protein 3  
Size: 756 amino acids; 82440 Da
Subunit: Forms an heterooligomeric complex with RAB11FIP4. Binds to RAB11A, RAB11B and RAB25
Subcellular location: Recycling endosome. Note=Colocalizes with RAB11A at recycling endosomes
PDB structure from and Proteopedia :
2D7C (3D)    2HV8 (3D)    
Secondary accessions: Q4VXV7 Q9H155 Q9H1G0 Q9NUI0

REFSEQ proteins (2 alternative transcripts): 
NP_001135744.1  NP_055515.1  


ENSEMBL proteins: 
ENSP00000262305 


Human Recombinant Proteins 
Browse Drug Discovery Central at Invitrogen for human recombinant proteins
Browse Purified and Recombinant Proteins at Millipore
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Browse R&D Systems for human recombinant proteins
Browse recombinant and purified proteins available from Enzo Life Sciences
Recombinant Proteins from Abcam (FIP3)
Human Recombinant Proteins from Abnova (RAB11FIP3)
                Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 

1 Gene Ontology (GO) cellular component term (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0055037 recycling endosome IEA--
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Antibodies for RAB11FIP3: 
Browse Antibodies Central at Invitrogen
Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
Browse Antibodies at Sigma-Aldrich
Browse R&D Systems for Antibodies
Antibodies from Abcam (FIP3), each with their AbpromiseSM
Browse Abnova for Monoclonal and Polyclonal Antibodies
Search Novus for antibodies for RAB11FIP3

Assays for RAB11FIP3: 
Browse Invitrogen for biochemical assays
Browse Kits and Assays available from Millipore
Browse R&D Systems for biochemical assays
Browse biochemical assays available from Enzo Life Sciences

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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4 InterPro domains/families:
 IPR011992 EF-Hand_type
 IPR002048 EF_hand_Ca_bd
 IPR018249 EF_HAND_2
 IPR019018 Rab11-bd_FIP_dom_C


   GeneDecks  RAB11FIP3 for the domains selected above  
About GeneDecksing

Graphical View of Domain Structure for InterPro Entry O75154

ProtoNet protein and cluster: O75154

UniProtKB/Swiss-Prot: RFIP3_HUMAN, O75154
Similarity: Contains 2 EF-hand domains

(According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
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Inhib.
RNA:
Invitrogen RNAi Products for gene knock-down (RAB11FIP3)
Browse for Gene Knock-down Tools from Millipore
Abnova Chimera RNAi Products for Gene knock-down (RAB11FIP3)
               OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2): NM_001142272

              Applied Biosystems Silencer® siRNAs for RAB11FIP3

              Sigma-Aldrich siRNA for RAB11FIP3  
                     Sigma-Aldrich shRNA Panels and shRNA for RAB11FIP3  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Clones:Browse Clone Ranger at Invitrogen for clones
Browse Clones for the Expression of Recombinant Proteins Available from Millipore
               OriGene GFP tagged cDNA clones in CMV expression vector (see all 2): NM_001142272
                                 Myc/DDK tagged cDNA clones in CMV expression vector (see all 2): NM_001142272
                                 untagged cDNA clones in CMV expression vector (see all 2): NM_001142272 

Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
              OriGene genome-wide validated SYBR primer pairs: NM_014700

2 Gene Ontology (GO) molecular function terms (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0005509 calcium ion binding IEA--
GO:0017137 Rab GTPase binding NAS11481332
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(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 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
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4 Interacting proteins for RAB11FIP3 (O751542) via UniProtKB, MINT, and/or STRING
InteractantInteraction Details
GeneCardExternal ID(s)
RACGAP1Q9H0H52MINT-6799593 MINT-6799707 MINT-6799722 MINT-6799583 MINT-6799628 MINT-6799646 MINT-6799664
RACGAP1PQ9H0H52MINT-6799593 MINT-6799707 MINT-6799722 MINT-6799583 MINT-6799628 MINT-6799646 MINT-6799664
RAB11AP624912MINT-6799685
--Q8WVP02MINT-6799707
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1 Gene Ontology (GO) biological process term (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0015031 protein transport IEA--
About this table
(Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
About This Section

Browse drugs & compounds from Enzo Life Sciences
Browse Small Molecules at Sigma-Aldrich

Browse Tocris compounds for RAB11FIP3

(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, Millipore, and/or Abnova,
siRNAs from Applied Biosystems, Sigma-Aldrich,
shRNA from Sigma-Aldrich, OriGene,
Tagged/untagged cDNA clones from OriGene,
Expression Assays from Applied Biosystems)
About This Section

Inhib.
RNA:
Invitrogen RNAi Products for gene knock-down (RAB11FIP3)
Browse for Gene Knock-down Tools from Millipore
Abnova Chimera RNAi Products for Gene knock-down (RAB11FIP3)
               OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2): NM_001142272

              Sigma-Aldrich siRNA for RAB11FIP3  
                     Sigma-Aldrich shRNA Panels and shRNA for RAB11FIP3  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Applied Biosystems Silencer® siRNAs: 

NM_001142272  NM_014700  

REFSEQ mRNAs for RAB11FIP3 gene (2 alternative transcripts): 

NM_001142272.1   NM_014700.3   

Applied Biosystems TaqMan ® Gene Expression Assays: 

NM_001142272  NM_014700  

               OriGene GFP tagged cDNA clones in CMV expression vector (see all 2): NM_001142272
                                 Myc/DDK tagged cDNA clones in CMV expression vector (see all 2): NM_001142272
                                 untagged cDNA clones in CMV expression vector (see all 2): NM_001142272 

Additional cDNA sequence: 

AB014565.1 AF038180.1 AF395731.1 AK094817.1 AK293644.1 AK303061.1 AY130007.1 BC051360.1 
CR622821.1 Z36827.1 

12 DOTS entries:

DT.453218  DT.95348290  DT.100033502  DT.70105242  DT.100672693  DT.100814842  DT.40278844  DT.97845974 
DT.95367285  DT.100814844  DT.120710577  DT.303298 

24/245 AceView cDNA sequences (see all 245 ):

AW304845 BQ674858 AI128222 F11160 AW444991 BQ212638 BM705075 BX509467 
BM681294 CA395186 BQ054166 BQ101082 CA430823 BF510355 BQ921593 AI824935 
CR622821 BQ684196 AW499645 BM711142 NM_014700 BM709104 AW469744 AA988359 

highest scoring ESTs for RAB11FIP3:

AA055405 AA323921 AA425081 AA480381 AA873410 AA932923 AA962448 AB014565 AF038180 AF395731 

Unigene Cluster for RAB11FIP3:

RAB11 family interacting protein 3 (class II)
Hs.531642  [show with all ESTs]
Unigene Representative Sequence: NM_014700


GeneLoc Exon Structure

5/8 Alternative Splicing Database (ASD) splice patterns (SP) for RAB11FIP3 (see all 8 )

ExUns: 1 ^ 2a · 2b ^ 3 ^ 4a · 4b · 4c ^ 5 ^ 6a · 6b · 6c ^ 7 ^ 8 ^ 9a · 9b ^ 10 ^ 11a · 11b · 11c ^ 12 ^ 13 ^ 14 ^ 15 ^ 16
SP1:                          -     -     -                       -     -                                                                           
SP2:                                                                                                                                                
SP3:                          -     -     -                                                                                                         
SP4:                                                              -     -                                                                           
SP5:                                      -                       -     -                                                                           

About this scheme

ECgene alternative splicing isoforms for RAB11FIP3

1 Ensembl transcript including schematic representation:
ENST00000262305  
(Experimental results according to 1GeneNote and GNF BioGPS,
probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , 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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RAB11FIP3 expression in normal and diseased human tissues

 Applied Biosystems TaqMan ® Gene Expression Assays for RAB11FIP3

1 / 2 / 3

12 probe-sets matching RAB11FIP3 gene


Affymetrix
probe-set
Array  GeneAnnot data GeneNote data GeneTide data
# genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank
75038_g_at2, 3 U95-D 1 1.00 1.00 0.92 1.05 AI651540 0.60 1.00 0.82 1

75036_at2, 3 U95-D 1 1.00 1.00 0.93 1.04 AI651540 0.60 1.00 0.82 1
41636_at2, 3 U95-A 2 0.38 0.92 0.81 0.84 AF038180 0.80 1.00 0.91 1
82830_at*2, 3 U95-D 1 1.00 1.00 0.83 0.76 AI640301 0.60 1.00 0.82 1

76655_at*2, 3 U95-E 1 0.94 1.00 0.67 1.34 AI431885 0.60 1.00 0.82 1

203933_at2, 3 U133-A 1 1.00 1.00 -- -- NM_014700 0.60 1.00 0.82 1

214999_s_at2, 3 U133-A 1 0.64 1.00 -- -- AW243089 0.40 1.00 0.76 1

228613_at*2 U133-B 1 1.00 1.00 -- -- -- -- -- -- --

203933_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

214999_s_at2 U133Plus2 1 0.64 1.00 -- -- -- -- -- -- --

228613_at*2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

1563104_at*2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
GeneDecks  RAB11FIP3 for binary patterns associated with the probe-sets selected above  
About GeneDecksing
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Data from (Publications) and GNF BioGPS
    About these images
About these images

CGAP SAGE TAG: GACTCCCAGG

SOURCE GeneReport for Unigene cluster: Hs.531642

Expression variation in blood from EXPOLDB for RAB11FIP3

(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
About This Section


Orthologs for RAB11FIP3 gene from 3 species
Organism Gene Locus Description Human
Similarity
NCBI accessions
cow
(Bos taurus)
RAB11FIP31   -- RAB11 family interacting protein 3 (class II) 84.01(n)
82.03(a)
511647  XM_001256127.1  XP_001256128.1 
rat
(Rattus norvegicus)
Rab11fip31   -- RAB11 family interacting protein 3 (class II) 85.95(n)
90.58(a)
303002  XM_220262.4  XP_220262.4 
mouse
(Mus musculus)
Rab11fip31, 5 175
RAB11 family interacting protein 3 (class II)1, 5 83.2(n)1
86.07(a)1
2154451  XM_484616.41  XP_484616.11 
 AB0932575  AK0527755  (see all 13)
About this table        Species with no ortholog for RAB11FIP3

ENSEMBL Gene Tree for RAB11FIP3
(Paralogs according to 1HomoloGene
and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
About This Section

Paralogs for RAB11FIP3 gene
RAB11FIP42  

(According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
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10/560 NCBI SNPs in RAB11FIP3 are shown (see all 560 )
(Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 108)
ABGenomic DataTranscription DataAllele Frequencies
SNP IDValidChr 16 posSequenceRecsAA
Chg
TypeMoreRecsAllele
freq
PopTotal
sample
More
------------
rs10543631,2
C,F,H512856(+) CCCGGG/TATTAA 1 -- ng319Minor allele frequency- T:0.05MN EU EA WA 1020
rs37600481,2
C,F,H414181(+) CAGAGG/AGAGCC 1 -- ng515Minor allele frequency- A:0.22EA EU WA 1894
--
rs109030161,2
A,C413724(+) ccgccC/Tgcctc 1 -- ng510--------
--
rs49848871,2
A,C512045(+) GCGTGC/TACGTG 1 -- ut31 ese30--------
rs96742941,2
F,H413931(+) AGCCTA/TCAAAG 1 -- ng51 tfbs34Minor allele frequency- T:0.03EU EA WA 418
rs72014811,2
H495573(+) CGGCAG/TCCACC 1 A/S mis1 ese34Minor allele frequency- T:0.00EU EA WA 416
rs10543341,2
F511905(+) GCCTGT/CGCTTC 1 -- ut311Minor allele frequency- C:0.13MN 184
rs16982301,2
F415429(-) GGGCGC/TGGGAC 1 -- ng514Minor allele frequency- T:0.05NA MN 400
rs115377541,2
C,F510558(+) TTCTCC/TGAGTC 1 S/S syn1 ese31Minor allele frequency- T:0.34NA 44
rs21787251,2
A,C,F,H,O462673(-) AAGACG/AGATAC 1 -- int110Minor allele frequency- A:0.35EU EA WA NA 1018
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HapMap Linkage Disequilibrium images for RAB11FIP3 (up to first 250kb)

(in which this Gene is Involved, According to OMIM, UniProtKB, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
About This Section

OMIM: 608738

(Possibly Related Articles in Doctor's Guide)
About This Section

  --

(in PubMed. Associations of this gene to articles via 1Novoseek, 2HGNC, 3Entrez Gene, 4UniProtKB/Swiss-Prot, 5UniProtKB/TrEMBL, 6GAD, and/or 7PharmGKB)
About This Section

10/19 PubMed articles for RAB11FIP3 gene (see all 19 ):
(in PubMed, OMIM, and NCBI Bookshelf)
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 ANDOR
Aliases
Free Text  

  Query String
PubMed
OMIM
NCBI Bookshelf
  (Note: In FireFox, select the above section and copy using Ctrl-C)
(According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, and/or H-InvDB)
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Entrez Gene: 9727 HGNC: 17224 AceView: RAB11FIP3 Ensembl:ENSG00000090565 euGenes: HUgn9727
ECgene: RAB11FIP3 H-InvDB: RAB11FIP3
(According to HUGE)
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HUGE: KIAA0665
(According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
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  --
(Available from WIS Yeda, Salk, Tufts)
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  --
(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



Products for RAB11FIP3:
 TaqMan ® Gene Expression Assays
 TaqMan ® Genotyping Assays
  Free SNP selection tool



  Invitrogen iPath Pathways  Invitrogen BLOCK-iT™ RNAi
  Invitrogen Antibodies  Invitrogen Assays
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 Predesigned and custom siRNAs for RAB11FIP3 Browse antibodies at Sigma-Aldrich
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 Lentivirus-delivered shRNAs for RAB11FIP3 Browse small molecules at Sigma-Aldrich
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