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SLAIN1 Gene

protein-coding   GIFtS: 47
GCID: GC13P078272

SLAIN Motif Family, Member 1

(Previous name: chromosome 13 open reading frame 32)
(Previous symbol: C13orf32)
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(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
SLAIN Motif Family, Member 11 2
C13orf321 2 3
Chromosome 13 Open Reading Frame 321
SLAIN Motif-Containing Protein 12

External Ids:    HGNC: 263871   Entrez Gene: 1220602   Ensembl: ENSG000001397377   OMIM: 6104915   UniProtKB: Q8ND833   

Export aliases for SLAIN1 gene to outside databases

Previous GC identifers: GC13P077170 GC13P058971


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for SLAIN1 Gene:
SLAIN1 (SLAIN motif family, member 1) is a protein-coding gene. An important paralog of this gene is SLAIN2.


(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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000013.10  NT_024524.15  NC_018924.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the SLAIN1 gene promoter:
         Egr-3   C/EBPbeta   Sox5   AML1a   HOXA3   FOXD1   LCR-F1   Roaz   S8   En-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSLAIN1 promoter sequence
   Search Chromatin IP Primers for SLAIN1

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SLAIN1


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 13q22.3   Ensembl cytogenetic band:  13q22.3   HGNC cytogenetic band: 13q22.3

SLAIN1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SLAIN1 gene location

GeneLoc information about chromosome 13         GeneLoc Exon Structure

GeneLoc location for GC13P078272:  view genomic region     (about GC identifiers)

Start:
78,271,989 bp from pter      End:
78,338,377 bp from pter
Size:
66,389 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: SLAI1_HUMAN, Q8ND83 (See protein sequence)
Recommended Name: SLAIN motif-containing protein 1  
Size: 568 amino acids; 60595 Da
Sequence caution: Sequence=AAI11498.1; Type=Erroneous initiation; Sequence=CAD39000.2; Type=Erroneous initiation;
Sequence=CAI12505.1; Type=Erroneous gene model prediction; Sequence=CAI12509.1; Type=Erroneous gene model
prediction;
Secondary accessions: A8K0Z9 B7Z209 Q5T6P4 Q5T6P7 Q8ND10 Q96NV0
Alternative splicing: 4 isoforms:  Q8ND83-1   Q8ND83-2   Q8ND83-3   Q8ND83-4   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for SLAIN1: NX_Q8ND83

Explore proteomics data for SLAIN1 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See SLAIN1 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (6 alternative transcripts): 
    NP_001035243.2  NP_001229797.1  NP_001229798.1  NP_001229799.1  NP_001229800.1  NP_653196.1  

    ENSEMBL proteins: 
     ENSP00000389195   ENSP00000419730   ENSP00000403049   ENSP00000393990   ENSP00000418707  
     ENSP00000366444   ENSP00000267219   ENSP00000403056   ENSP00000420320   ENSP00000420619  
     ENSP00000419436   ENSP00000418053   ENSP00000351507   ENSP00000400921   ENSP00000314546  
     ENSP00000314443  

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    Cloud-Clone Corp. Proteins for SLAIN1

     
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    antibodies-online antibodies for SLAIN1 (38 products) 

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    1 InterPro protein domain:
     IPR026179 Slain

    Graphical View of Domain Structure for InterPro Entry Q8ND83

    ProtoNet protein and cluster: Q8ND83

    UniProtKB/Swiss-Prot: SLAI1_HUMAN, Q8ND83
    Similarity: Belongs to the SLAIN motif-containing family


    Find genes that share domains with SLAIN1           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Phenotypes:
         1 MGI mutant phenotype (inferred from 2 alleles(MGI details for Slain1):
     no phenotypic analysis 

    Find genes that share phenotypes with SLAIN1           About GenesLikeMe

    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for SLAIN1
       inGenious Targeting Laboratory: Contact us about creating complex and humanized mouse models for SLAIN1

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for SLAIN1
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for SLAIN1

    miRNA
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    miRTarBase miRNAs that target SLAIN1:
    hsa-mir-92a-3p (MIRT049036), hsa-mir-96-5p (MIRT027889), hsa-mir-302a-3p (MIRT006202), hsa-mir-130b-3p (MIRT020144), hsa-mir-19b-3p (MIRT031113)

    Block miRNA regulation of human, mouse, rat SLAIN1 using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate SLAIN1 (see all 22):
    hsa-miR-301a hsa-miR-218 hsa-miR-519a hsa-miR-373* hsa-miR-548l hsa-miR-7-1* hsa-miR-130b hsa-miR-626
    SwitchGear 3'UTR luciferase reporter plasmidSLAIN1 3' UTR sequence
    Inhib. RNA
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    Addgene plasmids for SLAIN1 

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    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus3
    cytosol2
    cytoskeleton1
    mitochondrion1
    peroxisome1

    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, 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 Apr 2014 via Entrez Gene).
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        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for SLAIN1
    Interactions:

        Search GeneGlobe Interaction Network for SLAIN1

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for SLAIN1 (SLAI1)



    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 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,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for SLAIN1 gene (6 alternative transcripts): 
    NM_001040153.3  NM_001242868.1  NM_001242869.1  NM_001242870.1  NM_001242871.1  NM_144595.3  

    Unigene Cluster for SLAIN1:

    SLAIN motif family, member 1
    Hs.349955  [show with all ESTs]
    Unigene Representative Sequence: NM_001242868
    17 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000422114 ENST00000466548(uc001vkk.2) ENST00000446759 ENST00000442759
    ENST00000488699 ENST00000377236 ENST00000267219 ENST00000465831 ENST00000441784
    ENST00000462234 ENST00000496045 ENST00000474663 ENST00000481614 ENST00000358679
    ENST00000418532(uc010thy.1) ENST00000351546(uc010thz.1 uc001vkl.1 uc010aex.1 uc010aey.1 uc001vkm.2)
    ENST00000314070
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    Selected qRT-PCR Assays for microRNAs that regulate SLAIN1 (see all 22):
    hsa-miR-301a hsa-miR-218 hsa-miR-519a hsa-miR-373* hsa-miR-548l hsa-miR-7-1* hsa-miR-130b hsa-miR-626
    SwitchGear 3'UTR luciferase reporter plasmidSLAIN1 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat SLAIN1
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    Addgene plasmids for SLAIN1 
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      QuantiTect SYBR Green Assays in human, mouse, rat SLAIN1
      QuantiFast Probe-based Assays in human, mouse, rat SLAIN1

    Additional mRNA sequence: 

    AK054608.1 AK094337.1 AK289600.1 AK289714.1 AK294201.1 AK295423.1 AL834203.1 AL834332.1 
    BC045177.1 BC111497.1 

    10 DOTS entries:

    DT.100674073  DT.92433022  DT.100741650  DT.100022594  DT.92433017  DT.120780565  DT.40132759  DT.213893 
    DT.120780587  DT.92433023 

    Selected AceView cDNA sequences (see all 113):

    AV718254 Z39997 AA931158 Z45095 BG392851 AI459104 T32870 AI423737 
    BM721521 AI341345 AL834332 AV705265 AK094337 BP347995 F04002 BM479833 
    BU183003 AL834203 AA476671 AA974487 BM068757 BM702624 CK904607 BM677151 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for SLAIN1 (see all 9)    About this scheme

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


    ECgene alternative splicing isoforms for SLAIN1

    (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™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    SLAIN1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: AGCTCATTGC
    SLAIN1 Expression
    About this image


    SLAIN1 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 7) fully expand
     
     Inner Cell Mass (Early Embryonic Tissues)    fully expand to see all 3 entries
             Human embryonic stem cells (family)
     
     Brain (Nervous System)    fully expand to see all 2 entries
             Endothelial Cells Blood Brain Barrier
             Cerebral Cortex
     
     Blood (Cardiovascular System)    fully expand to see all 2 entries
             Conventional Dendritic Cells II Spleen
     
     Ovary (Reproductive System)
             Ovarian Somatic Cells Ovigerous Cord
     
     Endothelium (Cardiovascular System)
             Endothelial Cells Blood Brain Barrier
    SLAIN1 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    SLAIN1 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.349955

    UniProtKB/Swiss-Prot: SLAI1_HUMAN, Q8ND83
    Tissue specificity: Expressed in embryonic stem cells

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    In Situ
    Assay Products:
     

     
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    (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)
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    This gene was present in the common ancestor of chordates.

    Orthologs for SLAIN1 gene from Selected species (see all 12)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Slain11 , 5 SLAIN motif family, member 11, 5 84.43(n)1
    88.91(a)1
      14 (52.75 cM)5
    1054391  NM_198014.21  NP_932131.21 
     1036502285 
    chicken
    (Gallus gallus)
    Aves SLAIN11 SLAIN motif family, member 1 77.98(n)
    85.49(a)
      418807  XM_417002.4  XP_417002.4 
    lizard
    (Anolis carolinensis)
    Reptilia SLAIN16
    SLAIN motif family, member 1
    61(a)
    1 ↔ 1
    3(86178234-86229017)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.24292 Xenopus laevis transcribed sequences 77.05(n)    BG410030.1 
    zebrafish
    (Danio rerio)
    Actinopterygii slain1a1 SLAIN motif family, member 1a 59.26(n)
    58.21(a)
      560157  NM_001005305.1  NP_001005305.1 


    ENSEMBL Gene Tree for SLAIN1 (if available)
    TreeFam Gene Tree for SLAIN1 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for SLAIN1 gene
    SLAIN22  
    1 SIMAP similar gene for SLAIN1 using alignment to 9 protein entries:     SLAI1_HUMAN (see all proteins):
    SLAIN2

    Find genes that share paralogs with SLAIN1           About GenesLikeMe



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, 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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for SLAIN1 (see all 1235)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 13 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1910199381,2
    --78270224(+) GCATCC/TGCCAC 1 -- us2k10--------
    rs1469721081,2
    --78270337(+) GATATA/GCCGAA 1 -- us2k10--------
    rs801889911,2
    C--78270340(+) ATACCA/GAAACT 1 -- us2k10--------
    rs1828493901,2
    --78270388(+) GGCTAC/GCAAGC 1 -- us2k10--------
    rs1408793041,2
    C--78270449(+) TGGAAA/GCGCTC 1 -- us2k10--------
    rs767555821,2
    C--78270451(+) GAAGCA/GCTCAC 1 -- us2k10--------
    rs1875335741,2
    --78270494(+) ACACAC/GAAGCT 1 -- us2k10--------
    rs1931585171,2
    --78270526(+) AGAAGA/GTACAA 1 -- us2k10--------
    rs1386563781,2
    --78270842(+) CGTTTG/TCCAAG 1 -- us2k10--------
    rs38611331,2
    C,F,A,H--78270954(+) ACTTAC/TACATT 1 -- us2k122Minor allele frequency- T:0.44NS EA NA WA CSA 2344

    HapMap Linkage Disequilibrium report for SLAIN1 (78271989 - 78338377 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 6 variations for SLAIN1:    About this table    
    Variant IDTypeSubtypePubMed ID
    esv2747692CNV Deletion23290073
    esv2747691CNV Deletion23290073
    esv2747693CNV Deletion23290073
    esv1172184CNV Insertion17803354
    esv1521787CNV Insertion17803354
    esv23084CNV Loss19812545

    Site Specific Mutation Identification with PCR Assays
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    (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.)
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    OMIM gene information: 610491    OMIM disorders: --


    Find genes that share disorders with SLAIN1           About GenesLikeMe


    Export disorders for SLAIN1 gene to outside databases

    (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)
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    PubMed articles for SLAIN1 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with SLAIN1)
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    1. Transcriptional profiling of mouse and human ES cells identifies SLAIN1, a novel stem cell gene. (PubMed id 16546155)1, 2, 3 Hirst C.E....Elefanty A.G. (Dev. Biol. 2006)
    2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 2004)
    3. Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions. (PubMed id 19690332)2 Mayya V.... Han D.K. (Sci. Signal. 2009)
    4. The full-ORF clone resource of the German cDNA consortium. (PubMed id 17974005)2 Bechtel S.... Schupp I. (BMC Genomics 2007)
    5. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (Genome Res. 2006)
    6. The DNA sequence and analysis of human chromosome 13. (PubMed id 15057823)2 Dunham A.... Ross M.T. (Nature 2004)
    7. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S.... Malek J. (Genome Res. 2004)
    8. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)

    (in PubMed, OMIM, and NCBI Bookshelf)
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 122060 HGNC: 26387 AceView: FLJ30046 Ensembl:ENSG00000139737 euGenes: HUgn122060
    ECgene: SLAIN1 H-InvDB: SLAIN1

    (According to HUGE)
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    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for SLAIN1 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for SLAIN1 gene:
    Search GeneIP for patents involving SLAIN1

    GeneCards and IP:
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    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, eBioscience, antibodies-online, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
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