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YIPF5 Gene

protein-coding   GIFtS: 49

GC05M143520
Yip1 domain family, member 5
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
Services    

Aliases &
Descriptions
for YIPF5

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
About This Section
Aliases
DKFZp313L2216 2
FINGER5 3
FinGER5 1, 2
SB140 2
SMAP-5 1, 2, 3
SMAP5 2, 5
YIP1A 2, 3, 5
Descriptions
Five-pass transmembrane protein localizing in the Golgi
apparatus and the endoplasmic reticulum 5 3
Smooth muscle cell-associated protein 5 3
YIP1 family member 5 3
YPT-interacting protein 1 A 3
Yip1 domain family, member 5 2
golgi membrane protein SB140 2
smooth muscle cell associated protein 5 2
External Ids
HGNC: 248771
Entrez Gene: 815552
UniProtKB: Q969M33
Ensembl: ENSG000001458177
Search outside databases for aliases for YIPF5 gene

Summaries
for YIPF5

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

UniProtKB/Swiss-Prot: YIPF5_HUMAN, Q969M3
Function: Plays a role in transport between endoplasmic reticulum and Golgi

Gene Wiki entry for YIPF5

Genomic Location
for YIPF5

(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)
About This Section

 Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the YIPF5 gene  

Entrez Gene cytogenetic band: 5q32   Ensembl cytogenetic band:  5q32   HGNC cytogenetic band: 5q31.3

YIPF5 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 5         GeneLoc Exon Structure

GeneLoc location for GC05M143520:     (about GC identifiers)

Start:
 143,517,919 bp from pter
End:
 143,530,409 bp from pter
Size:
 12,491 bases
Orientation:
 minus strand
RefSeq DNA sequence:
NC_000005.8  NT_029289.10  

Proteins
for YIPF5

(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)
About This Section

 UniProtKB/Swiss-Prot: YIPF5_HUMAN, Q969M3 (See protein sequence)
Recommended Name: Protein YIPF5  
Size: 257 amino acids; 27989 Da
Subunit: Interacts with the COPII coat components Sec23 (SEC23A and/or SEC23B) and Sec24 (SEC24A
and/or SEC24B). Interacts with YIF1A. May interact with RAB1A
Subcellular location: Endoplasmic reticulum membrane; Multi-pass membrane protein. Golgi apparatus,
Golgi stack membrane; Multi-pass membrane protein. Cytoplasmic vesicle, COPII-coated vesicle.
Note=Enriched at the endoplasmic reticulum exit sites. Incorporated into COPII coated vesicles
Secondary accessions: Q4VSN6 Q53EX4 Q8NHE5 Q9H338 Q9H3U4
Alternative splicing: 3 isoforms:  Q969M3-1   Q969M3-2   Q969M3-3   

Post-translational modifications:

  • View phosphorylation sites using PhosphoSite2


    • REFSEQ proteins (2 alternative transcripts): 
    NP_001020118.1  NP_110426.4  


    ENSEMBL proteins: 
    ENSP00000274496 ENSP00000367224 


    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 Abcam for Recombinant Proteins
    Browse Abnova for Human Recombinant Proteins
                    Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 

    5/6 Gene Ontology (GO) cellular component terms (links to tree view) (see all 6 ):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005783 endoplasmic reticulum IEA--
    GO:0005789 endoplasmic reticulum membrane IEA--
    GO:0005794 Golgi apparatus IEA--
    GO:0016020 membrane IEA--
    GO:0016021 integral to membrane IEA--
    About this table

    Antibodies for YIPF5: 
    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
    Search for antibodies at Abcam and the World's Antibody Gateway (free search engine of over 150 antibody companies)
    Browse Abnova for Monoclonal and Polyclonal Antibodies
    Search Novus for antibodies for YIPF5

    Assays for YIPF5: 
    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

    Protein Domains/
    Families
    for YIPF5

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    1 InterPro domain/family:
     IPR006977 Yip1


       GeneDecks  YIPF5 for the domains selected above  
    About GeneDecksing

    Graphical View of Domain Structure for InterPro Entry Q969M3

    ProtoNet protein and cluster: Q969M3

    UniProtKB/Swiss-Prot: YIPF5_HUMAN, Q969M3
    Similarity: Belongs to the YIP1 family

    Gene Function
    for YIPF5

    (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.)
    About This Section
    Inhib.
    RNA:    		Invitrogen RNAi Products for gene knock-down (YIPF5)
    Browse for Gene Knock-down Tools from Millipore
    Browse Abnova for Chimera RNAi Products
                   OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2): NM_030799

                  Applied Biosystems Silencer® siRNAs for YIPF5

                  Sigma-Aldrich siRNA for YIPF5  
                         Sigma-Aldrich shRNA for YIPF5  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Clones:Invitrogen Clones for YIPF5
    Browse Clones for the Expression of Recombinant Proteins Available from Millipore
                   OriGene GFP tagged cDNA clones in CMV expression vector (see all 2): NM_001024947
                                     Myc/DDK tagged cDNA clones in CMV expression vector (see all 2): NM_001024947
                                     untagged cDNA clones in CMV expression vector (see all 2): NM_001024947 

    Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
                  OriGene genome-wide validated SYBR primer pairs: NM_030799

    UniProtKB/Swiss-Prot: YIPF5_HUMAN, Q969M3
    Function: Plays a role in transport between endoplasmic reticulum and Golgi
    Induction: By TGFB1

    Pathways & Interactions
    for YIPF5

    (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.)
    About This Section



    1 Interacting protein for YIPF5 (ENSP000003672243) via UniProtKB, MINT, and/or STRING
    InteractantInteraction Details
    GeneCardExternal ID(s)
    YIF1AENSP000003660983STRING (score=.98)
    About this table

    2 Gene Ontology (GO) biological process terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0015031 protein transport IEA--
    GO:0016192 vesicle-mediated transport IEA--
    About this table

    Drugs & Compounds
    for YIPF5

    (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 YIPF5

    Transcripts
    for YIPF5

    (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 (YIPF5)
    Browse for Gene Knock-down Tools from Millipore
    Browse Abnova for Chimera RNAi Products
                   OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2): NM_030799

                  Sigma-Aldrich siRNA for YIPF5  
                         Sigma-Aldrich shRNA for YIPF5  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Applied Biosystems Silencer® siRNAs: 

    NM_001024947  NM_030799  

    REFSEQ mRNAs for YIPF5 gene (2 alternative transcripts): 

    NM_001024947.2   NM_030799.7   

    Applied Biosystems TaqMan ® Gene Expression Assays: 

    NM_001024947  NM_030799  

                   OriGene GFP tagged cDNA clones in CMV expression vector (see all 2): NM_001024947
                                     Myc/DDK tagged cDNA clones in CMV expression vector (see all 2): NM_001024947
                                     untagged cDNA clones in CMV expression vector (see all 2): NM_001024947 

    Additional cDNA sequence: 

    AB014733.1 AF140225.1 AF318329.1 AK054576.1 AK124065.1 AK223515.1 AK307251.1 AY358863.1 
    AY640925.1 AY640926.1 AY640927.1 AY640928.1 AY640929.1 AY640934.1 BC007829.2 BC014253.2 
    BC024737.1 BX647859.1 CR749463.1 

    11 DOTS entries:

    DT.211535  DT.101982836  DT.120800667  DT.99975828  DT.91769323  DT.100814197  DT.91769322  DT.120800631 
    DT.100028545  DT.120800671  DT.120800672 

    24/262 AceView cDNA sequences (see all 262 ):

    BM310652 BQ009703 AA431454 BQ652735 BF727025 AA373289 AI925556 AW069100 
    NM_030799 CB150061 CB106516 BF793125 BM310949 AW069481 BI038297 BQ710172 
    CB120933 BP336090 BQ932724 AL542272 BM562472 CD365961 C21544 CD678669 

    highest scoring ESTs for YIPF5:

    AA132208 AA169752 AA171435 AA305800 AA356684 AA375715 AF318329 AK054576 AK124065 AL599810 

    Unigene Cluster for YIPF5:

    Yip1 domain family, member 5
    Hs.372050  [show with all ESTs]
    Unigene Representative Sequence: NM_001024947


    GeneLoc Exon Structure

    5/6 Alternative Splicing Database (ASD) splice patterns (SP) for YIPF5 (see all 6 )

    ExUns: 1a · 1b · 1c ^ 2 ^ 3a · 3b ^ 4a · 4b ^ 5a · 5b · 5c ^ 6a · 6b ^ 7a · 7b · 7c
    SP1:                    -                                         -                                 
    SP2:                    -           -     -                       -                                 
    SP3:                    -     -     -                             -                                 
    SP4:                    -                                         -                                 
    SP5:                    -                                                                           

    About this scheme

    ECgene alternative splicing isoforms for YIPF5

    2 Ensembl transcripts including schematic representations:
    ENST00000274496  ENST00000377986  

    Expression
    for YIPF5

    (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 )
    About This Section

    YIPF5 expression in normal and diseased human tissues

     Applied Biosystems TaqMan ® Gene Expression Assays for YIPF5

    1 / 2 / 3

    13 probe-sets matching YIPF5 gene


    		Affymetrix
    probe-set    		 Array  GeneAnnot data GeneNote data GeneTide data
    # genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank
    62457_at2, 3 U95-C 1 1.00 1.00 0.71 1.25 AA132208 0.80 1.00 0.91 1

    		50731_at2, 3 U95-B 1 1.00 1.00 0.72 1.10 N40203 0.60 1.00 0.82 1
    46758_at2, 3 U95-B 1 1.00 1.00 0.68 1.06 AA040621 0.60 1.00 0.82 1

    		62770_r_at2, 3 U95-C 1 0.94 1.00 0.82 0.63 AA169752 0.80 1.00 0.91 1

    		84090_at2, 3 U95-E 1 0.62 1.00 0.48 0.99 AI418308 0.60 1.00 0.82 1

    		224949_at2, 3 U133-B 1 1.00 1.00 -- -- AA169752 0.80 1.00 0.91 1

    		224953_at2, 3 U133-B 1 1.00 1.00 -- -- AW001618 0.40 1.00 0.76 1

    		221423_s_at2, 3 U133-A 1 1.00 1.00 -- -- NM_030799 0.60 1.00 0.82 1

    		224934_at2, 3 U133-B 1 1.00 1.00 -- -- AW473802 0.60 1.00 0.82 1

    		224949_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

    		224953_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

    		221423_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

    		224934_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
    GeneDecks  YIPF5 for binary patterns associated with the probe-sets selected above  
    About GeneDecksing
    About this table    
    Data from (Publications) and GNF BioGPS
        About these images
    About these images

    CGAP SAGE TAG: CAGAGTTGTA

    SOURCE GeneReport for Unigene cluster: Hs.372050

    UniProtKB/Swiss-Prot: YIPF5_HUMAN, Q969M3
    Tissue specificity: Ubiquitously expressed. Highly expressed in coronary smooth muscles

    Orthologs
    for YIPF5

    (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 YIPF5 gene from 5/21 species (see all 21 )
    Organism Gene Locus Description Human
    Similarity    		 NCBI accessions
    dog
    (Canis familiaris)    		 YIPF51   -- Yip1 domain family, member 5 94.94(n)
    98.05(a)    		 478048  XM_535226.2  XP_535226.1 
    chimpanzee
    (Pan troglodytes)    		 YIPF51   -- Yip1 domain family, member 5 99.87(n)
    100(a)    		 462162  XM_001155619.1  XP_001155619.1 
    cow
    (Bos taurus)    		 YIPF51   -- Yip1 domain family, member 5 93.77(n)
    97.28(a)    		 521829  NM_001034543.1  NP_001029715.1 
    rat
    (Rattus norvegicus)    		 Yipf51   -- Yip1 domain family, member 5 85.14(n)
    86.41(a)    		 361315  NM_001014150.2  NP_001014172.2 
    mouse
    (Mus musculus)    		 Yipf51, 5 185
    		 Yip1 domain family, member 51, 5 88.85(n)1
    92.61(a)1    		 671801  NM_023311.31  NP_075800.11 
     AA4082365  AF1402265  (see all 31)
    About this table        Species with no ortholog for YIPF5

    ENSEMBL Gene Tree for YIPF5

    Paralogs
    for YIPF5

    (Paralogs according to 1HomoloGene
    and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
    About This Section

    Paralogs for YIPF5 gene
    YIPF72  

    SNPs/Variants
    for YIPF5

    (According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
    About This Section


    10/76 NCBI SNPs in YIPF5 are shown (see all 76 )
    (Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 67)
    ABGenomic DataTranscription DataAllele Frequencies
    SNP IDValidChr 5 posSequenceRecsAA
    Chg    		TypeMoreRecsAllele
    freq    		PopTotal
    sample    		More
    ------------
    rs74483901,2
    		A,C,F,H143518696(+) TATTTT/CCCTCC 2 -- ut31 ese3 trp34Minor allele frequency- C:0.27EU EA WA 406
    rs45059841,2
    		A,C,F,H143518809(+) CTACAG/AATTCT 2 -- ut31 ese34Minor allele frequency- A:0.04EU EA WA 404
    rs50201911,2
    		A,C,F,H143517640(+) ACATGT/CATGAG 1 -- ng514Minor allele frequency- C:0.45EU EA WA 418
    rs42895871,2
    		A,C,F,H143517709(+) AAGGCG/ATGTTT 1 -- ng5112Minor allele frequency- A:0.38EU EA WA NS NA 648
    rs10432921,2
    		A,C,F143519335(-) CTCCAA/GAAATT 2 -- ut314Minor allele frequency- G:0.28MN NA 324
    rs46169311,2
    		A,C,F143519011(+) GTAAAC/TTCAAT 2 -- ut313Minor allele frequency- T:0.48NA 140
    rs171016071,2
    		C,F,H143518782(+) GATCAG/CTATAC 2 -- ut31 ese312Minor allele frequency- C:0.24NA EU EA WA 1052
    rs121092841,2
    		C,F,H143519978(+) CAATAT/CAGTAT 2 -- ut31 ese37Minor allele frequency- C:0.09EU EA WA NA 556
    rs46231781,2
    		A,C143518097(+) GCTTTA/GCACCT 2 -- ut310--------
    rs354295311,2
    		C143525245(-) TCCAGC/TTTCAC 2 A/V mis11Minor allele frequency- T:0.01NA 72
    About this table

    HapMap Linkage Disequilibrium images for YIPF5 (up to first 250kb)

    Disorders & Mutations
    for YIPF5

    (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: 611483

    Medical News
    for YIPF5

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

    		   --

    Publications
    for YIPF5

    (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

    		10/15 PubMed articles for YIPF5 gene (see all 15 ):

    Search for YIPF5

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section

     ANDOR
    Aliases
    Free Text  
      Query String
    		PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    Genome Databases showing YIPF5

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, and/or H-InvDB)
    About This Section
    Entrez Gene: 81555 HGNC: 24877 AceView: SMAP-5 Ensembl:ENSG00000145817 euGenes: HUgn81555
    ECgene: YIPF5 H-InvDB: YIPF5

    Other Databases showing YIPF5

    (According to HUGE)
    About This Section

    		   --

    Specialized Databases showing YIPF5

    (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

    		   --

    Licensable Technologies
    for YIPF5

    (Available from WIS Yeda, Salk, Tufts)
    About This Section

    		  --

    Services
    for YIPF5

    (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 YIPF5:
     TaqMan ® Gene Expression Assays
     TaqMan ® Genotyping Assays
    		  Free SNP selection tool



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     Millipore Immunoassay Services
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     Predesigned and custom siRNAs for YIPF5 Browse antibodies at Sigma-Aldrich
     Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
     Lentivirus-delivered shRNAs for YIPF5 Browse small molecules at Sigma-Aldrich
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