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C1orf38 Gene

protein-coding   GIFtS: 50

GC01P028071
chromosome 1 open reading frame 38
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
ICB-1 1, 2
OTTHUMP00000003850 2
OTTHUMP00000003991 2
OTTHUMP00000003993 2
Descriptions
Protein ICB-1 3
basement membrane-induced gene 2
chromosome 1 open reading frame 38 2
External Ids
HGNC: 168391
Entrez Gene: 94732
UniProtKB: Q5TEJ83
Ensembl: ENSG000001307757
Search outside databases for aliases for C1orf38 gene

Previous GC identifers: GC01M027189 GC01P027432 GC01P027803 GC01P027810 GC01P027883

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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  --
(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 C1orf38 gene  

Entrez Gene cytogenetic band: 1p35.3   Ensembl cytogenetic band:  1p35.3   HGNC cytogenetic band: 1p35.2

C1orf38 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 1         GeneLoc Exon Structure

GeneLoc location for GC01P028071:     (about GC identifiers)

Start:
28,071,642 bp from pter
End:
28,085,783 bp from pter
Size:
14,142 bases
Orientation:
plus strand
RefSeq DNA sequence:
NC_000001.9  NT_004610.18  
(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: ICB1_HUMAN, Q5TEJ8 (See protein sequence)
Recommended Name: Induced by contact to basement membrane 1 protein  
Size: 643 amino acids; 72049 Da
Sequence caution: Sequence=AAC16284.1; Type=Frameshift; Positions=416, 469, 494, 530, 532;
Sequence=CAI21769.1; Type=Erroneous gene model prediction; Sequence=CAI21771.1; Type=Erroneous
gene model prediction; Sequence=CAI21773.1; Type=Erroneous gene model prediction;
Secondary accessions: A2RTZ3 O60560 Q5TEJ1 Q5TEJ9 Q5TEK1 Q68DP4 Q9BYB6 Q9NS90
Alternative splicing: 4 isoforms:  Q5TEJ8-1   Q5TEJ8-2   Q5TEJ8-3   Q5TEJ8-4   

Post-translational modifications:

  • View phosphorylation sites using PhosphoSite2


  • REFSEQ proteins (3 alternative transcripts): 
    NP_001034566.1  NP_001099026.1  NP_004839.2  


    ENSEMBL proteins: 
    ENSP00000363037 ENSP00000363031 ENSP00000363029 ENSP00000363035 ENSP00000329862 


    Human Recombinant Proteins 
    Browse Drug Discovery Central at Invitrogen for human recombinant proteins
    Browse Purified and Recombinant Proteins at Millipore
    Browse Human Recombinant Proteins at Sigma-Aldrich  
    Browse R&D Systems for human recombinant proteins
    Browse recombinant and purified proteins available from Enzo Life Sciences
    Recombinant Proteins from Abcam (C1orf38)
    Human Recombinant Proteins from Abnova (C1orf38)
                  OriGene Purified Recombinant Human Protein: C1orf38 


    Antibodies for C1orf38: 
    Browse Antibodies Central at Invitrogen
    Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
    Sigma-Aldrich Antibodies for C1orf38
    Browse R&D Systems for Antibodies
    Antibodies from Abcam (C1orf38), each with their AbpromiseSM
    Monoclonal and Polyclonal Antibodies from Abnova (C1orf38)
    Novus Biologicals Antibodies for C1orf38

    Assays for C1orf38: 
    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)
    About This Section

    ProtoNet protein and cluster: Q5TEJ8

    (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 (C1orf38)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (C1orf38)
                   OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 3): NM_004848

                  Applied Biosystems Silencer® siRNAs for C1orf38

                  Sigma-Aldrich siRNA for C1orf38  
                         Browse shRNA at Sigma-Aldrich  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Clones:Invitrogen Clones for C1orf38
    Browse Clones for the Expression of Recombinant Proteins Available from Millipore
                   OriGene GFP tagged cDNA clones in CMV expression vector (see all 3): NM_001039477
                                     Myc/DDK tagged cDNA clones in CMV expression vector (see all 3): NM_001039477
                                     untagged cDNA clones in CMV expression vector (see all 3): NM_001039477 

    Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
                  OriGene genome-wide validated SYBR primer pairs: NM_001105556

    UniProtKB/Swiss-Prot: ICB1_HUMAN, Q5TEJ8
    Induction: By contact to a reconstituted basement membrane

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0007155 cell adhesion TAS9563507
    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 C1orf38

    (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 (C1orf38)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (C1orf38)
                   OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 3): NM_004848

                  Sigma-Aldrich siRNA for C1orf38  
                         Browse shRNA at Sigma-Aldrich  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Applied Biosystems Silencer® siRNAs: 

    NM_001039477  NM_001105556  NM_004848  

    REFSEQ mRNAs for C1orf38 gene (3 alternative transcripts): 

    NM_001039477.1   NM_001105556.1   NM_004848.2   

    Applied Biosystems TaqMan ® Gene Expression Assays: 

    NM_001039477  NM_001105556  NM_004848  

                   OriGene GFP tagged cDNA clones in CMV expression vector (see all 3): NM_001039477
                                     Myc/DDK tagged cDNA clones in CMV expression vector (see all 3): NM_001039477
                                     untagged cDNA clones in CMV expression vector (see all 3): NM_001039477 

    Additional cDNA sequence: 

    AB035482.1 AB050854.1 AF323721.1 AK303090.1 AK303141.1 AK309633.1 BC031655.1 BC132692.1 
    BC133049.1 CR604917.1 CR749321.1 

    10 DOTS entries:

    DT.100783005  DT.95110258  DT.95110255  DT.416836  DT.92066684  DT.100719017  DT.121404031  DT.100783006 
    DT.86847619  DT.91746611 

    24/181 AceView cDNA sequences (see all 181 ):

    AA588624 BI521256 CB528870 AI866718 W63743 BP338649 BP339331 AI927451 
    AA575924 BM473038 AA455658 N33211 AA280149 CD365001 BV178317 AI570737 
    CR604917 AB035482 CA308421 BM708753 AA731736 AW193256 BI823781 AW518359 

    highest scoring ESTs for C1orf38:

    AB035482 AB050854 AF044896 AJ712834 AL577281 AW129512 AW469341 BC031655 BF084335 BF849040 

    Unigene Cluster for C1orf38:

    Chromosome 1 open reading frame 38
    Hs.10649  [show with all ESTs]
    Unigene Representative Sequence: NM_001105556


    GeneLoc Exon Structure

    5/10 Alternative Splicing Database (ASD) splice patterns (SP) for C1orf38 (see all 10 )

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

    About this scheme

    ECgene alternative splicing isoforms for C1orf38

    5 Ensembl transcripts including schematic representations:
    ENST00000373927  ENST00000373921  ENST00000373919  ENST00000373925  ENST00000328928  
    (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

    C1orf38 expression in normal and diseased human tissues

     Applied Biosystems TaqMan ® Gene Expression Assays for C1orf38

    1 / 2 / 3

    5 probe-sets matching C1orf38 gene


    Affymetrix
    probe-set
    Array  GeneAnnot data GeneNote data GeneTide data
    # genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank
    41409_at2, 3 U95-A 1 1.00 1.00 1.00 1.00 AF044896 0.80 1.00 0.91 1

    210785_s_at2, 3 U133-A 1 1.00 1.00 -- -- AB035482 0.80 1.00 0.91 1

    207571_x_at2, 3 U133-A 1 1.00 1.00 -- -- NM_004848 0.60 1.00 0.82 1

    210785_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

    207571_x_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
    GeneDecks  C1orf38 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: GATTAATGTG

    SOURCE GeneReport for Unigene cluster: Hs.10649

    Expression variation in blood from EXPOLDB for C1orf38

    UniProtKB/Swiss-Prot: ICB1_HUMAN, Q5TEJ8
    Tissue specificity: Expressed in different endometrial adenocarcinoma cell lines and various other
    cell lines aprat from the prostate cell line LNCAP and the ovarian cancer cell line BG-1

    (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 C1orf38 gene from 5/6 species (see all 6 )
    Organism Gene Locus Description Human
    Similarity
    NCBI accessions
    dog
    (Canis familiaris)
    LOC6120651   -- similar to basement membrane-induced gene 80.88(n)
    73.2(a)
    612065  XM_849791.1  XP_854884.1 
    cow
    (Bos taurus)
    LOC5071261   -- similar to basement membrane-induced gene 81.18(n)
    71.92(a)
    507126  XM_583685.3  XP_583685.3 
    rat
    (Rattus norvegicus)
    RGD15610161   -- similar to BC013712 protein 77(n)
    70.59(a)
    500561  XM_575925.2  XP_575925.2 
    mouse
    (Mus musculus)
    BC0137121, 5 45
    cDNA sequence BC0137121, 5 78.11(n)1
    70.09(a)1
    2307871  NM_001033308.21  NP_001028480.11 
     AA1702035  AK1374655  (see all 17)
    chicken
    (Gallus gallus)
    C1orf381   -- chromosome 1 open reading frame 38 59.46(n)
    50.86(a)
    419565  XM_417712.2  XP_417712.2 
    About this table        Species with no ortholog for C1orf38

    ENSEMBL Gene Tree for C1orf38
    (Paralogs according to 1HomoloGene
    and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
    About This Section

    Paralogs for C1orf38 gene
    TSEPA2  

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


    10/94 NCBI SNPs in C1orf38 are shown (see all 94 )
    (Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 68)
    ABGenomic DataTranscription DataAllele Frequencies
    SNP IDValidChr 1 posSequenceRecsAA
    Chg
    TypeMoreRecsAllele
    freq
    PopTotal
    sample
    More
    ------------
    rs14749081,2
    A,C,F,H,O28085800(-) CAGAAT/CTTAAT 3 -- ng3111Minor allele frequency- C:0.47EU EA WA NA 972
    rs65651,2
    A,C,F,H28085744(-) ATTCTA/GTGGTT 3 -- ut318Minor allele frequency- G:0.47MN EU EA WA NA 736
    rs113991,2
    A,C,F,H28085393(+) TCACAC/TTGCAT 3 -- ut31 ese38Minor allele frequency- T:0.09MN NA EU EA WA 710
    rs65641,2
    A,C,F,H28085562(-) GCCAAG/ATTCCC 3 -- ut3113Minor allele frequency- A:0.44MN EU EA WA NA 1346
    rs114851,2
    C,F,H28085466(+) CCTGGA/CCTGTC 3 -- ut318Minor allele frequency- C:0.02MN EU EA WA NA 742
    rs37664001,2
    C,F,H28081953(+) TTGTGA/GAGGCC 3 K/E mis1 int16Minor allele frequency- G:0.39EU EA WA NA 596
    --
    rs112476981,2
    A,C28070104(+) tcaagC/Tgattc 3 -- ng510--------
    --
    rs112476971,2
    A,C28070041(+) ttgttA/Gcccaa 3 -- ng510--------
    --
    rs109026731,2
    A28070846(+) ggcctC/Tccaaa 3 -- ng510--------
    rs359955431,2
    F28081713(-) CTCCAC/GGAAAC 3 V/L mis1 int11Minor allele frequency- G:0.07NA 28
    About this table

    HapMap Linkage Disequilibrium images for C1orf38 (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

    Human Genome Epidemiology Navigator: C1orf38 (1 document)

    (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 PubMed articles for C1orf38 gene:
    (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)
    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, and/or H-InvDB)
    About This Section

    Entrez Gene: 9473 HGNC: 16839 AceView: C1orf38 Ensembl:ENSG00000130775 euGenes: HUgn9473
    ECgene: C1orf38 H-InvDB: C1orf38
    (According to HUGE)
    About This Section

      --
    (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

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

      --
    (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 C1orf38:
     TaqMan ® Gene Expression Assays
     TaqMan ® Genotyping Assays
      Free SNP selection tool



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     Predesigned and custom siRNAs for C1orf38 Antibodies for C1orf38
     Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
     Browse shRNAs at Sigma-Aldrich Browse small molecules at Sigma-Aldrich
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     Purified proteins from HEK293T cells
     Western blot validated antibodies
     shRNA in GFP-retroviral vector
     Search Tocris compounds for C1orf38




     Search www.enzolifesicences.com for proteins, assays, substrates, inhibitors & antibodies
     Antibodies for C1orf38

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