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BANF1 Gene

protein-coding   GIFtS: 57

GC11P065526
barrier to autointegration factor 1
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
Services    

Aliases &
Descriptions
for BANF1

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
About This Section
Aliases
BAF 1, 2, 3, 5
BCRG1 3
BCRP1 2
D14S1460 2
MGC111161 2
Descriptions
Breakpoint cluster region protein 1 2, 3
barrier to autointegration factor 1 2
External Ids
HGNC: 173971
Entrez Gene: 88152
UniProtKB: O755313
Ensembl: ENSG000001753347
Search outside databases for aliases for BANF1 gene

Previous GC identifers: GC11P067450 GC11P066019 GC11P065544

Summaries
for BANF1

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

 EntrezGene summary for BANF1:
The protein encoded by this gene was first identified by its ability to protect retroviruses from
intramolecular integration and therefore promote intermolecular integration into the host cell
genome. The protein forms a homodimer which localizes to both the nucleus and cytoplasm and is
specifically associated with chromosomes during mitosis. This protein binds to double stranded DNA
in a non-specific manner and also binds to LEM-domain containing proteins of the nuclear envelope.
This protein is thought to facilitate nuclear reassembly by binding with both DNA and inner
nuclear membrane proteins and thereby recruit chromatin to the nuclear periphery. Alternative
splicing results in multiple transcript variants encoding the same protein.

UniProtKB/Swiss-Prot: BAF_HUMAN, O75531
Function: Plays fundamental roles in nuclear assembly, chromatin organization, gene expression and
gonad development. May potently compress chromatin structure and be involved in membrane
recruitment and chromatin decondensation during nuclear assembly. Contains 2 non-specific
dsDNA-binding sites which may promote DNA cross-bridging. Exploited by retroviruses for inhibiting
self-destructing autointegration of retroviral DNA, thereby promoting integration of viral DNA
into the host chromosome

Gene Wiki entry for BANF1 (Barrier_to_autointegration_factor_1)

Genomic Location
for BANF1

(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 BANF1 gene  

Entrez Gene cytogenetic band: 11q13.1   Ensembl cytogenetic band:  11q13.1   HGNC cytogenetic band: 11q13.1

BANF1 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 11         GeneLoc Exon Structure

GeneLoc location for GC11P065526:     (about GC identifiers)

Start:
 65,526,126 bp from pter
End:
 65,528,193 bp from pter
Size:
 2,068 bases
Orientation:
 plus strand
RefSeq DNA sequence:
NC_000011.8  NT_033903.7  

Proteins
for BANF1

(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: BAF_HUMAN, O75531 (See protein sequence)
Recommended Name: Barrier-to-autointegration factor  
Size: 89 amino acids; 10059 Da
Subunit: Homodimer. Heterodimerizes with BAFL. Binds non-specifically to double-stranded DNA, and
is found as a hexamer or dodecamer upon DNA binding. Binds to LEM domain-containing nuclear
proteins such as LEMD3/MAN1, TMPO/LAP2 and EMD (emerin). Interacts with CRX and LMNA (lamin-A).
Binds linker histone H1.1 and core histones H3 with in vitro affinities of 500-900 and 100-200 nM.
Interacts with HIV-1 pre-integration complex in cytoplasm by binding to viral matrix protein and
Gag polyprotein
Subcellular location: Nucleus. Cytoplasm. Note=Significantly enriched at the nuclear inner
membrane, diffusely throughout the nucleus during interphase and concentrated at the chromosomes
during the M-phase. May be included in HIV-1 virions via its interaction with viral GAG
polyprotein
Sequence caution: Sequence=AAC08964.1; Type=Frameshift; Positions=87;
PDB structures from and Proteopedia :
1CI4 (3D)    1QCK (3D)    2BZF (3D)    2EZX (3D)    2EZY (3D)    2EZZ (3D)    2ODG (3D)    
Secondary accessions: O60558 Q6FGG7

Post-translational modifications:

  • Partially phosphorylated on serine. Ser-4 phosphorylation may block BAF ability to promote EMD
    binding to lamins in vitro. Non phosphorylated BAF seems to enhances binding between EMD and LMNA1
  • View phosphorylation sites using PhosphoSite2


    • REFSEQ proteins (2 alternative transcripts): 
    NP_001137457.1  NP_003851.1  


    ENSEMBL proteins: 
    ENSP00000310275 


    Human Recombinant Proteins 
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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 (BANF1)
    Human Recombinant Proteins from Abnova (BANF1)
                  OriGene Purified Recombinant Human Protein: BANF1 

    4 Gene Ontology (GO) cellular component terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634 nucleus IEA--
    GO:0005694 chromosome IEA--
    GO:0005737 cytoplasm IEA--
    GO:0005829 cytosol EXP12228227 15479846
    About this table

    Antibodies for BANF1: 
    Browse Antibodies Central at Invitrogen
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    Sigma-Aldrich Antibodies for BANF1
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    Antibodies from Abcam (BANF1), each with their AbpromiseSM
    Monoclonal and Polyclonal Antibodies from Abnova (BANF1)
    Novus Biologicals Antibodies for BANF1

    Assays for BANF1: 
    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 BANF1

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    1 InterPro domain/family:
     IPR004122 BAF_prot


       GeneDecks  BANF1 for the domains selected above  
    About GeneDecksing

    Graphical View of Domain Structure for InterPro Entry O75531

    ProtoNet protein and cluster: O75531

    1 Blocks protein family: IPB004122 Barrier to autointegration factor

    UniProtKB/Swiss-Prot: BAF_HUMAN, O75531
    Domain: Has a helix-hairpin-helix (HhH) structural motif conserved among proteins that bind
    non-specifically to DNA
    Domain: LEM domain proteins bind centrally on the BAF dimer, whereas DNA binds to the left and
    right sides
    Similarity: Belongs to the BAF family

    Gene Function
    for BANF1

    (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 (BANF1)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (BANF1)
                   OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2): NM_003860

                  Applied Biosystems Silencer® siRNAs for BANF1

                  Sigma-Aldrich siRNA for BANF1  
                         Sigma-Aldrich shRNA for BANF1  
                         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_001143985
                                     Myc/DDK tagged cDNA clones in CMV expression vector (see all 2): NM_001143985
                                     untagged cDNA clones in CMV expression vector (see all 2): NM_001143985 

    Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
                  OriGene genome-wide validated SYBR primer pairs: NM_001143985

    UniProtKB/Swiss-Prot: BAF_HUMAN, O75531
    Function: Plays fundamental roles in nuclear assembly, chromatin organization, gene expression and
    gonad development. May potently compress chromatin structure and be involved in membrane
    recruitment and chromatin decondensation during nuclear assembly. Contains 2 non-specific
    dsDNA-binding sites which may promote DNA cross-bridging. Exploited by retroviruses for inhibiting
    self-destructing autointegration of retroviral DNA, thereby promoting integration of viral DNA
    into the host chromosome

    1 Gene Ontology (GO) molecular function term (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003677 DNA binding IEA--
    About this table

    Pathways & Interactions
    for BANF1

    (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


     Gene Network CentralTM Interacting Genes and Proteins Network for  BANF1 


    5/30 Interacting proteins for BANF1 (ENSP000003102753) via UniProtKB, MINT, and/or STRING (see all 30 )
    InteractantInteraction Details
    GeneCardExternal ID(s)
    EMDENSP000003588573STRING (score=.999)
    SMARCAD1ENSP000003519473STRING (score=.987)
    LMNAENSP000003572833STRING (score=.972)
    SMARCA4ENSP000003507203STRING (score=.961)
    LEMD3ENSP000003083693STRING (score=.952)
    About this table

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0009615 response to virus TAS9465049
    GO:0019047 provirus integration EXP16291214
    GO:0019059 initiation of viral infection EXP12091904
    GO:0044419 interspecies interaction between organisms IEA--
    About this table

    Drugs & Compounds
    for BANF1

    (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 BANF1

    Transcripts
    for BANF1

    (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)
    About This Section
    Inhib.
    RNA:    		Invitrogen RNAi Products for gene knock-down (BANF1)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (BANF1)
                   OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2): NM_003860

                  Sigma-Aldrich siRNA for BANF1  
                         Sigma-Aldrich shRNA for BANF1  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    REFSEQ mRNAs for BANF1 gene (2 alternative transcripts): 

    NM_001143985.1   NM_003860.3   


                   OriGene GFP tagged cDNA clones in CMV expression vector (see all 2): NM_001143985
                                     Myc/DDK tagged cDNA clones in CMV expression vector (see all 2): NM_001143985
                                     untagged cDNA clones in CMV expression vector (see all 2): NM_001143985 

    Additional cDNA sequence: 

    AF044773.1 AF068235.1 AF070447.1 AK311961.1 BC005942.1 BC008705.1 BC107702.1 CR542140.1 
    CR611359.1 

    17 DOTS entries:

    DT.449005  DT.95135076  DT.95366550  DT.120962331  DT.91772050  DT.95211261  DT.100806424  DT.120729756 
    DT.120729757  DT.100880501  DT.100880503  DT.100880499  DT.120729766  DT.95209324  DT.95366646  DT.120729768 
    DT.95366591 

    24/467 AceView cDNA sequences (see all 467 ):

    BM704569 F37941 BM835022 CA433023 BU538710 AI128602 BQ893554 BX282475 
    CF129460 CD742600 BG987776 AA513688 BM908301 AA866102 BQ430476 BF768932 
    BQ219359 BG171420 BM670544 BM700228 AI186228 AA309983 CR611359 CD674447 

    highest scoring ESTs for BANF1:

    AI033692 AA035095 AA035635 AA037254 AA054951 AA062973 AA130162 AA132472 AA308978 AA309983 

    Unigene Cluster for BANF1:

    Barrier to autointegration factor 1
    Hs.433759  [show with all ESTs]
    Unigene Representative Sequence: BM474651


    GeneLoc Exon Structure

    4 Alternative Splicing Database (ASD) splice patterns (SP) for BANF1

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

    About this scheme

    ECgene alternative splicing isoforms for BANF1

    1 Ensembl transcript including schematic representation:
    ENST00000312175  

    Expression
    for BANF1

    (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

    BANF1 expression in normal and diseased human tissues

     Applied Biosystems TaqMan ® Gene Expression Assays for BANF1

    1 / 2 / 3

    3 probe-sets matching BANF1 gene


    		Affymetrix
    probe-set    		 Array  GeneAnnot data GeneNote data GeneTide data
    # genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank

    		38663_at2, 3 U95-A 4 1.00 0.53 1.00 1.00 AI033692 1.00 0.90 0.95 1

    		210125_s_at2, 3 U133-A 4 1.00 0.66 -- -- AF044773 0.80 1.00 0.91 1

    		210125_s_at2 U133Plus2 4 1.00 0.66 -- -- -- -- -- -- --
    About this table
    Data from (Publications) and GNF BioGPS
        About these images
    About these images

    CGAP SAGE TAG: CCTCCCCCGT

    SOURCE GeneReport for Unigene cluster: Hs.433759

    Expression variation in blood from EXPOLDB for BANF1

    UniProtKB/Swiss-Prot: BAF_HUMAN, O75531
    Tissue specificity: Widely expressed. Expressed in colon, brain, heart, kidney, liver, lung, ovary,
    pancreas, placenta, prostate, skeletal muscle, small intestine, spleen and testis. Not detected in
    thymus and peripheral blood leukocytes

    Orthologs
    for BANF1

    (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 BANF1 gene from 5/11 species (see all 11 )
    Organism Gene Locus Description Human
    Similarity    		 NCBI accessions
    dog
    (Canis familiaris)    		 BANF11   -- barrier to autointegration factor 1 95.88(n)
    100(a)    		 611961  XM_849683.1  XP_854776.1 
    chimpanzee
    (Pan troglodytes)    		 BANF11   -- barrier to autointegration factor 1 99.63(n)
    100(a)    		 746065  XM_001170547.1  XP_001170547.1 
    rat
    (Rattus norvegicus)    		 Banf11   -- barrier to autointegration factor 1 92.51(n)
    96.63(a)    		 114087  NM_053631.2  NP_446083.1 
    mouse
    (Mus musculus)    		 Banf11, 5 195
    		 barrier to autointegration factor 11, 5 93.26(n)1
    96.63(a)1    		 238251  NM_001038231.11  NP_001033320.11 
     AB0253495  AF0370805  (see all 18)
    zebrafish
    (Danio rerio)    		 zgc:777671   -- zgc:77767 75.38(n)
    82.95(a)    		 334717  NM_205562.1  NP_991125.1 
    About this table        Species with no ortholog for BANF1

    ENSEMBL Gene Tree for BANF1

    Paralogs
    for BANF1

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

    Paralogs for BANF1 gene
    BANF22  

    Pseudogenes
    4 related pseudogenes


    SNPs/Variants
    for BANF1

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


    3 NCBI SNPs in BANF1 are shown
    (Click for Applied Biosystems TaqMan ® Genotyping Assay) (only AB snps)
    ABGenomic DataTranscription DataAllele Frequencies
    SNP IDValidChr 11 posSequenceRecsAA
    Chg    		TypeMoreRecsAllele
    freq    		PopTotal
    sample    		More
    ------------
    rs5225531,2
    		A,C,F,H65528245(+) CTCCTC/TCAGGG 1 -- ng318Minor allele frequency- T:0.23EA NA EU WA 638
    --
    rs6197011,2
    		F65528656(-) GTACTC/TCCCTC 1 -- ng311Minor allele frequency- T:0.32MN 184
    --
    rs729309741,2
    		--65528489(+) CAGTGG/TGAGTC 1 -- ng310--------
    About this table
    The following additional 41 SNP(s) have been found in Applied Biosystems data source:
    (Click for Applied Biosystems TaqMan ® Genotyping Assay)


     rs2276131 rs2276017 rs1786174 rs7128076 rs1786172 rs1192184 rs12785292
     rs1131544 rs35497370 rs632578 rs506873 rs502363 rs35173176 rs14157
     rs613924 rs1143916 rs540584 rs590531 rs610497 rs747526 rs36091557
     rs507672 rs35208625 rs10896073 rs11554558 rs2276132 rs12574568 rs3825068
     rs1783564 rs10791837 rs1047464 rs677350 rs2030 rs2847698 rs12576095
     rs549334 rs632640 rs1786171 rs12577165 rs1051196 rs2277305

    HapMap Linkage Disequilibrium images for BANF1 (up to first 250kb)

    Disorders & Mutations
    for BANF1

    (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.)
    About This Section

    		 OMIM: 603811

    2 Novoseek disease relationships for BANF1 gene

    Disease   Score   Articles   PubMed IDs for Articles with Shared Sentences (# sentences)
    immunodeficiency 31.28 3 14645565 (1), 12663813 (1), 16203725 (1)
    leukemia 0.00 2 14645565 (1), 17035312 (1)
    About this table

    Medical News
    for BANF1

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

    		   --

    Publications
    for BANF1

    (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

    		10/57 PubMed articles for BANF1 gene (see all 57 ):

    Search for BANF1

    (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 BANF1

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, and/or H-InvDB)
    About This Section
    Entrez Gene: 8815 HGNC: 17397 AceView: BANF1 Ensembl:ENSG00000175334 euGenes: HUgn8815
    ECgene: BANF1 H-InvDB: BANF1

    Other Databases showing BANF1

    (According to HUGE)
    About This Section

    		   --

    Specialized Databases showing BANF1

    (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 BANF1

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

    		  --

    Services
    for BANF1

    (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 BANF1:
     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 BANF1 Antibodies for BANF1
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     Lentivirus-delivered shRNAs for BANF1 Browse small molecules at Sigma-Aldrich
     "Your Favorite Gene" Pathwaysfeedback


      
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     Recombinant & Natural Proteins  

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     Recombinant Proteins
    (BANF1)
     Antibodies (BANF1)
     Tagged/untagged cDNA clones
     Validated SYBR primer pairs
     Purified proteins from HEK293T cells
     Western blot validated antibodies
     shRNA in GFP-retroviral vector
     Search Tocris compounds for BANF1




     Search www.enzolifesicences.com for proteins, assays, substrates, inhibitors & antibodies
     Antibodies for BANF1

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