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AFF3 (lymphoid nuclear protein related to AF4)

Written2003-08Anne RM von Bergh
Afdeling Klinische Genetica, Erasmus MC, Dr. Molewaterplein 50, 3015 GE Rotterdam, The Netherlands

(Note : for Links provided by Atlas : click)

Identity

Alias (NCBI)LAF4 (lymphoid nuclear protein related to AF4)
MLLT2-related protein, lymphoid nuclear protein 4
HGNC (Hugo) AFF3
HGNC Alias symbMLLT2-like
HGNC Previous nameLAF4
HGNC Previous namelymphoid nuclear protein related to AF4
 AF4/FMR2 family, member 3
LocusID (NCBI) 3899
Atlas_Id 315
Location 2q11.2  [Link to chromosome band 2q11]
Location_base_pair Starts at 99545419 and ends at 100142590 bp from pter ( according to GRCh38/hg38-Dec_2013)  [Mapping AFF3.png]
Fusion genes
(updated 2017)
Data from Atlas, Mitelman, Cosmic Fusion, Fusion Cancer, TCGA fusion databases with official HUGO symbols (see references in chromosomal bands)
AFF3 (2q11.2)::AFF1 (4q21.3)AFF3 (2q11.2)::ASZ1 (7q31.2)AFF3 (2q11.2)::BCL2 (18q21.33)
AFF3 (2q11.2)::CDH3 (16q22.1)AFF3 (2q11.2)::EIF5B (2q11.2)AFF3 (2q11.2)::HDAC5 (17q21.31)
AFF3 (2q11.2)::KMT2A (11q23.3)AFF3 (2q11.2)::NPAS2 (2q11.2)AFF3 (2q11.2)::PHF1 (6p21.32)
AFF3 (2q11.2)::RTN4 (2p16.1)AFF3 (2q11.2)::RUNX1 (21q22.12)AFF3 (2q11.2)::SAP130 (2q14.3)
AFF3 (2q11.2)::TMEM182 (2q12.1)EPAS1 (2p21)::AFF3 (2q11.2)FGFR2 (10q26.13)::AFF3 (2q11.2)
KMT2A (11q23.3)::AFF3 (2q11.2)POLR1A (2p11.2)::AFF3 (2q11.2)RGS3 (9q32)::AFF3 (2q11.2)
RP9 (7p14.3)::AFF3 (2q11.2)RUNX1 (21q22.12)::AFF3 (2q11.2)

DNA/RNA

Description at least 17 exons.
Transcription in a telomere to centromere direction; 3857 bp mRNA; 3684 bp open reading frame.

Protein

Description 1227 amino acids; 133734 Da.
Expression Preferentially expressed in lymphoid tissues, highest levels being found in the thymus. Lower expression in brain and lung.
Localisation Nuclear
Function Putative transcription activator that may function in lymphoid development and oncogenesis. Binds in vitro to double-stranded DNA
Homology Belongs to the AF4/LAF4/FMR2/AF5q31 family.

Implicated in

Note
  
Entity . --> KMT2A- LAF4
Note MLL fusion partner at chromosome 2 in infant ALL
Disease The three cases reported to date were all infant-ALL with proB phenotype
Prognosis Prognosis is poor, although based on only three cases.
Cytogenetics The three reported cases harboured different rearrangements involving chromosomes 2 and 11: t(2;11)(q11;q23), t(2;11)(p15;p14), and ins(11;2)(q23;q11.2q11.2).
Abnormal Protein The MLL-LAF4 fusion protein includes the transactivation domain of LAF4 that is part of the AF4/LAF4/FMR2 homology domain.
 
Coding sequence of LAF4 compared to AF4 and site of fusion. Schematic representation of MLL, LAF4, AF4, and the putative MLL-LAF4 fusion protein. Domains in MLL are shaded: MT, DNA methyltransferase homology region; TRX, Drosophila trithorax homology. The percentage of amino acid homology between corresponding regions of LAF4 and AF4 is indicated: NHD, N-terminal homology domain; ALF, AF4/LAF4/FMR2 homology domain; TAD, transactivation domain; NLS, nuclear localization sequence; CHD, C-terminal homology domain. Arrows indicate the fusion sites with MLL. The breakpoint in LAF4 corresponds to one of the known breakpoints in AF4.
  

Breakpoints

 

Bibliography

Occurrence of an MLL/LAF4 fusion gene caused by the insertion ins(11;2)(q23;q11.2q11.2) in an infant with acute lymphoblastic leukemia.
Bruch J, Wilda M, Teigler-Schlegel A, Harbott J, Borkhardt A, Metzler M
Genes, chromosomes & cancer. 2003 ; 37 (1) : 106-109.
PMID 12661012
 
Fusion of an AF4-related gene, LAF4, to MLL in childhood acute lymphoblastic leukemia with t(2;11)(q11;q23).
Hiwatari M, Taki T, Taketani T, Taniwaki M, Sugita K, Okuya M, Eguchi M, Ida K, Hayashi Y
Oncogene. 2003 ; 22 (18) : 2851-2855.
PMID 12743608
 
LAF-4 encodes a lymphoid nuclear protein with transactivation potential that is homologous to AF-4, the gene fused to MLL in t(4;11) leukemias.
Ma C, Staudt LM
Blood. 1996 ; 87 (2) : 734-745.
PMID 8555498
 
LAF4, an AF4-related gene, is fused to MLL in infant acute lymphoblastic leukemia.
von Bergh AR, Beverloo HB, Rombout P, van Wering ER, van Weel MH, Beverstock GC, Kluin PM, Slater RM, Schuuring E
Genes, chromosomes & cancer. 2002 ; 35 (1) : 92-96.
PMID 12203795
 

Citation

This paper should be referenced as such :
von Bergh, ARM
LAF4 (lymphoid nuclear protein related to AF4)
Atlas Genet Cytogenet Oncol Haematol. 2003;7(4):226-227.
Free journal version : [ pdf ]   [ DOI ]


Other Leukemias implicated (Data extracted from papers in the Atlas) [ 5 ]
  11q23 rearrangements (KMT2A) in leukaemia
t(2;11)(q11;q23) KMT2A::AFF3
t(2;18)(q11;q21) AFF3::BCL2
t(2;21)(q11;q22)
t(2;21)(q11;q22) RUNX1::AFF3


External links

Nomenclature
HGNC (Hugo)AFF3   6473
Cards
AtlasLAF4ID315
Entrez_Gene (NCBI)AFF3    AF4/FMR2 family member 3
AliasesKINS; LAF4; MLLT2-like
GeneCards (Weizmann)AFF3
Ensembl hg19 (Hinxton)ENSG00000144218 [Gene_View]
Ensembl hg38 (Hinxton)ENSG00000144218 [Gene_View]  ENSG00000144218 [Sequence]  chr2:99545419-100142590 [Contig_View]  AFF3 [Vega]
ICGC DataPortalENSG00000144218
TCGA cBioPortalAFF3
AceView (NCBI)AFF3
Genatlas (Paris)AFF3
SOURCE (Princeton)AFF3
Genetics Home Reference (NIH)AFF3
Genomic and cartography
GoldenPath hg38 (UCSC)AFF3  -     chr2:99545419-100142590 -  2q11.2   [Description]    (hg38-Dec_2013)
GoldenPath hg19 (UCSC)AFF3  -     2q11.2   [Description]    (hg19-Feb_2009)
GoldenPathAFF3 - 2q11.2 [CytoView hg19]  AFF3 - 2q11.2 [CytoView hg38]
ImmunoBaseENSG00000144218
Genome Data Viewer NCBIAFF3 [Mapview hg19]  
OMIM601464   619297   
Gene and transcription
Genbank (Entrez)AB209634 AK055117 AK091320 AK092327 AK290468
RefSeq transcript (Entrez)NM_001025108 NM_001386135 NM_002285
Consensus coding sequences : CCDS (NCBI)AFF3
Gene ExpressionAFF3 [ NCBI-GEO ]   AFF3 [ EBI - ARRAY_EXPRESS ]   AFF3 [ SEEK ]   AFF3 [ MEM ]
Gene Expression Viewer (FireBrowse)AFF3 [ Firebrowse - Broad ]
GenevisibleExpression of AFF3 in : [tissues]  [cell-lines]  [cancer]  [perturbations]  
BioGPS (Tissue expression)3899
GTEX Portal (Tissue expression)AFF3
Human Protein AtlasENSG00000144218-AFF3 [pathology]   [cell]   [tissue]
Protein : pattern, domain, 3D structure
Domain families : Pfam (Sanger)
Domain families : Pfam (NCBI)
Conserved Domain (NCBI)AFF3
Human Protein Atlas [tissue]ENSG00000144218-AFF3 [tissue]
HPRD03272
Protein Interaction databases
BioGRIDAFF3
STRING (EMBL)AFF3
ZODIACAFF3
Ontologies - Pathways
Litterature
PubMed44 Pubmed reference(s) in Entrez
GeneRIFsGene References Into Functions (Entrez)
EVEXAFF3
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

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indexed on : Fri Oct 8 21:21:05 CEST 2021

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