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Aliases for AFDN Gene

Aliases for AFDN Gene

  • Afadin, Adherens Junction Formation Factor 2 3 5
  • Myeloid/Lymphoid Or Mixed-Lineage Leukemia; Translocated To, 4 2 3
  • ALL1-Fused Gene From Chromosome 6 Protein 3 4
  • Protein AF-6 3 4
  • MLLT4 3 4
  • AF6 3 4
  • Myeloid/Lymphoid Or Mixed-Lineage Leukemia (Trithorax Homolog, Drosophila); Translocated To, 4 3
  • Afadin Adherens Junction Formation Factor 4
  • L-Afadin 3
  • MLL-AF6 3
  • Afadin 3

External Ids for AFDN Gene

Previous HGNC Symbols for AFDN Gene

  • MLLT4

Summaries for AFDN Gene

Entrez Gene Summary for AFDN Gene

  • This gene encodes a multi-domain protein involved in signaling and organization of cell junctions during embryogenesis. It has also been identified as the fusion partner of acute lymphoblastic leukemia (ALL-1) gene, involved in acute myeloid leukemias with t(6;11)(q27;q23) translocation. Alternatively spliced transcript variants encoding different isoforms have been described for this gene, however, not all have been fully characterized.[provided by RefSeq, May 2011]

GeneCards Summary for AFDN Gene

AFDN (Afadin, Adherens Junction Formation Factor) is a Protein Coding gene. Diseases associated with AFDN include Central Nervous System Leukemia and Cleft Lip/Palate-Ectodermal Dysplasia Syndrome. Among its related pathways are Cytoskeletal Signaling and Blood-Brain Barrier and Immune Cell Transmigration: VCAM-1/CD106 Signaling Pathways. An important paralog of this gene is PPP1R9A.

UniProtKB/Swiss-Prot for AFDN Gene

  • Belongs to an adhesion system, probably together with the E-cadherin-catenin system, which plays a role in the organization of homotypic, interneuronal and heterotypic cell-cell adherens junctions (AJs). Nectin- and actin-filament-binding protein that connects nectin to the actin cytoskeleton.

Gene Wiki entry for AFDN Gene

Additional gene information for AFDN Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for AFDN Gene

Genomics for AFDN Gene

GeneHancer (GH) Regulatory Elements for AFDN Gene

Promoters and enhancers for AFDN Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH06J167825 Promoter/Enhancer 2.5 EPDnew Ensembl ENCODE dbSUPER 670 +2.5 2520 8.6 PKNOX1 FOXA2 SMAD1 ARNT ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 AFDN LINC01558 ENSG00000269155 AFDN-DT ENSG00000285212 PIR39756
GH06J167795 Promoter/Enhancer 1.4 EPDnew Ensembl ENCODE 650.3 -30.3 -30274 3 TAF1 MAX CEBPG RAD21 YY1 GATA3 POLR2A EGR1 PRPF4 ZBTB2 ENSG00000269155 LINC01558 LOC441179 ENSG00000285212 AFDN
GH06J167824 Enhancer 0.9 ENCODE dbSUPER 650.7 -1.9 -1946 0.2 HDAC1 CEBPG CTBP1 ZNF316 ADNP VEZF1 ZSCAN29 NFE2 ATF7 RNF2 AFDN AFDN-DT ENSG00000285212 LINC01558
GH06J167733 Enhancer 1 ENCODE 11.9 -92.7 -92679 1.3 FOXA2 MLX ARID4B DMAP1 ZNF48 ETS1 YY1 TCF12 NFKBIZ RXRA AFDN LOC100422263 LOC105378132
GH06J167698 Enhancer 1.1 FANTOM5 Ensembl ENCODE 10.3 -127.1 -127144 2 JUN MAX ELF1 ZIC2 RAD21 NR2F2 SP1 POLR2A FOXP2 ETV6 AFDN LINC01558 LOC105378132 LOC100422263
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around AFDN on UCSC Golden Path with GeneCards custom track

Genomic Locations for AFDN Gene

Genomic Locations for AFDN Gene
chr6:167,826,922-167,972,023
(GRCh38/hg38)
Size:
145,102 bases
Orientation:
Plus strand
chr6:168,227,602-168,372,703
(GRCh37/hg19)
Size:
145,102 bases
Orientation:
Plus strand

Genomic View for AFDN Gene

Genes around AFDN on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
AFDN Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for AFDN Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for AFDN Gene

Proteins for AFDN Gene

  • Protein details for AFDN Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P55196-AFAD_HUMAN
    Recommended name:
    Afadin
    Protein Accession:
    P55196
    Secondary Accessions:
    • O75087
    • O75088
    • O75089
    • Q59FP0
    • Q5TIG6
    • Q5TIG7
    • Q9NSN7
    • Q9NU92

    Protein attributes for AFDN Gene

    Size:
    1824 amino acids
    Molecular mass:
    206804 Da
    Quaternary structure:
    • Homodimer. Interacts with F-actin, nectin and NECTIN3. Essential for the association of nectin and E-cadherin. Isoform 1/s-afadin does not interact with F-actin. Interacts with ZO-1 and occludin, but probably in an indirect manner. Interacts with RIT1 and RIT2 (By similarity). Interacts with NRXN1 and BCR.
    SequenceCaution:
    • Sequence=CAB82312.1; Type=Frameshift; Positions=1509, 1512, 1701; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for AFDN Gene

    Alternative splice isoforms for AFDN Gene

neXtProt entry for AFDN Gene

Post-translational modifications for AFDN Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for AFDN Gene

Domains & Families for AFDN Gene

Gene Families for AFDN Gene

HGNC:
Human Protein Atlas (HPA):
  • Cancer-related genes
  • Disease related genes
  • Plasma proteins
  • Predicted intracellular proteins

Graphical View of Domain Structure for InterPro Entry

P55196

UniProtKB/Swiss-Prot:

AFAD_HUMAN :
  • The PDZ/DHR domain interacts with the C-terminus of nectin and the Pro-rich C-terminal domain interacts with F-actin.
Domain:
  • The PDZ/DHR domain interacts with the C-terminus of nectin and the Pro-rich C-terminal domain interacts with F-actin.
genes like me logo Genes that share domains with AFDN: view

Function for AFDN Gene

Molecular function for AFDN Gene

UniProtKB/Swiss-Prot Function:
Belongs to an adhesion system, probably together with the E-cadherin-catenin system, which plays a role in the organization of homotypic, interneuronal and heterotypic cell-cell adherens junctions (AJs). Nectin- and actin-filament-binding protein that connects nectin to the actin cytoskeleton.

Gene Ontology (GO) - Molecular Function for AFDN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 10225955
GO:0008022 protein C-terminus binding TAS 10856295
GO:0017016 Ras GTPase binding IDA 23885123
GO:0045296 cadherin binding IDA 25468996
GO:0050839 cell adhesion molecule binding IEA,IBA --
genes like me logo Genes that share ontologies with AFDN: view
genes like me logo Genes that share phenotypes with AFDN: view

Animal Models for AFDN Gene

MGI Knock Outs for AFDN:
  • Afdn Afdn<tm1Ytk>
  • Afdn Afdn<tm1Mrcr>
  • Afdn Afdn<tm1a(EUCOMM)Hmgu>

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for AFDN

Clone Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for AFDN Gene

Localization for AFDN Gene

Subcellular locations from UniProtKB/Swiss-Prot for AFDN Gene

Cell junction, adherens junction. Note=Not found at cell-matrix AJs.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for AFDN gene
Compartment Confidence
plasma membrane 5
nucleus 5
cytosol 5
cytoskeleton 2
extracellular 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cell Junctions (4)
  • Plasma membrane (4)
  • Nucleoplasm (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for AFDN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005654 nucleoplasm IDA --
GO:0005737 cytoplasm IEA --
GO:0005829 cytosol IDA,TAS --
GO:0005886 plasma membrane IDA --
GO:0005911 cell-cell junction TAS,IEA 10856295
genes like me logo Genes that share ontologies with AFDN: view

Pathways & Interactions for AFDN Gene

genes like me logo Genes that share pathways with AFDN: view

Gene Ontology (GO) - Biological Process for AFDN Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007155 cell adhesion TAS,IEA --
GO:0007165 signal transduction IEA --
GO:0007267 cell-cell signaling TAS 8242616
GO:0021537 telencephalon development IEA --
GO:0021987 cerebral cortex development IEA --
genes like me logo Genes that share ontologies with AFDN: view

No data available for SIGNOR curated interactions for AFDN Gene

Drugs & Compounds for AFDN Gene

(3) Drugs for AFDN Gene - From: DrugBank and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
(5R)-2-SULFANYL-5-[4-(TRIFLUOROMETHYL)BENZYL]-1,3-THIAZOL-4-ONE Experimental Pharma Target 0
genes like me logo Genes that share compounds with AFDN: view

Transcripts for AFDN Gene

mRNA/cDNA for AFDN Gene

(20) REFSEQ mRNAs :
(12) Selected AceView cDNA sequences:
(22) Ensembl transcripts including schematic representations, and UCSC links where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for AFDN

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for AFDN Gene

No ASD Table

Relevant External Links for AFDN Gene

GeneLoc Exon Structure for
AFDN
ECgene alternative splicing isoforms for
AFDN

Expression for AFDN Gene

NURSA nuclear receptor signaling pathways regulating expression of AFDN Gene:

AFDN

Evidence on tissue expression from TISSUES for AFDN Gene

  • Nervous system(4.9)
  • Liver(4.4)
  • Kidney(2.6)
  • Lung(2.6)
  • Heart(2.2)
  • Skin(2)
No Expression Related Data Available

No data available for mRNA expression in normal human tissues , mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for AFDN Gene

Orthologs for AFDN Gene

This gene was present in the common ancestor of animals.

Orthologs for AFDN Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia MLLT4 34 33
  • 98.23 (n)
OneToOne
dog
(Canis familiaris)
Mammalia MLLT4 34 33
  • 88.07 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Mllt4 33
  • 87.93 (n)
mouse
(Mus musculus)
Mammalia Mllt4 34 33
  • 87 (n)
OneToOne
Afdn 16
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 86 (a)
OneToMany
-- 34
  • 84 (a)
OneToMany
-- 34
  • 78 (a)
OneToMany
-- 34
  • 77 (a)
OneToMany
cow
(Bos Taurus)
Mammalia MLLT4 34 33
  • 81.45 (n)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia MLLT4 34
  • 62 (a)
OneToOne
chicken
(Gallus gallus)
Aves MLLT4 34 33
  • 80.9 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia MLLT4 34
  • 80 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia mllt4 33
  • 73.37 (n)
Str.20348 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.22528 33
zebrafish
(Danio rerio)
Actinopterygii mllt4 34 33
  • 71.06 (n)
OneToMany
MLLT4 (3 of 3) 34
  • 58 (a)
OneToMany
MLLT4 (2 of 3) 34
  • 44 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta cno 34
  • 31 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea afd-1 34 33
  • 47.68 (n)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 44 (a)
OneToOne
Species where no ortholog for AFDN was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for AFDN Gene

ENSEMBL:
Gene Tree for AFDN (if available)
TreeFam:
Gene Tree for AFDN (if available)
Aminode:
Evolutionary constrained regions (ECRs) for AFDN: view image

Paralogs for AFDN Gene

Paralogs for AFDN Gene

genes like me logo Genes that share paralogs with AFDN: view

Variants for AFDN Gene

Sequence variations from dbSNP and Humsavar for AFDN Gene

SNP ID Clin Chr 06 pos Variation AA Info Type
rs1057519562 uncertain-significance, not specified 167,915,425(+) ATC/TGA coding_sequence_variant, non_coding_transcript_variant, stop_gained
rs35140809 uncertain-significance, not specified 167,896,967(+) A/G coding_sequence_variant, missense_variant, non_coding_transcript_variant
rs1000041615 -- 167,906,587(+) A/G intron_variant
rs1000044961 -- 167,924,402(+) C/T intron_variant
rs1000055332 -- 167,921,245(+) G/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for AFDN Gene

Variant ID Type Subtype PubMed ID
nsv949897 CNV deletion 24416366
nsv830865 CNV gain 17160897
nsv830864 CNV gain 17160897
nsv820650 CNV deletion 20802225
nsv8004 CNV gain 18304495
nsv5593 CNV insertion 18451855
nsv515568 CNV gain+loss 19592680
nsv511926 CNV loss 21212237
nsv509173 CNV insertion 20534489
nsv442020 CNV gain 18776908
nsv1145112 CNV deletion 24896259
nsv1074037 CNV deletion 25765185
nsv1030168 CNV gain 25217958
nsv1027114 CNV gain 25217958
esv991018 CNV deletion 20482838
esv3611680 CNV gain 21293372
esv3611679 CNV gain 21293372
esv3611678 CNV gain 21293372
esv3611675 CNV loss 21293372
esv3350230 CNV insertion 20981092
esv32818 CNV gain 17666407
esv2763949 CNV gain 21179565
esv2761051 CNV gain 21179565
esv2759493 CNV gain 17122850
esv2678919 CNV deletion 23128226
esv2572068 CNV deletion 19546169
esv2422479 CNV duplication 17116639
esv2422263 CNV duplication 17116639
esv23528 CNV gain+loss 19812545
esv1558245 CNV deletion 17803354
dgv791n27 CNV gain 19166990
dgv61n64 CNV gain 17921354
dgv6199n100 CNV gain 25217958
dgv27e196 CNV duplication 17116639
dgv218e55 CNV gain 17911159
dgv217e55 CNV gain 17911159
dgv1853e212 CNV gain 25503493
dgv11063n54 CNV gain 21841781
dgv11062n54 CNV gain 21841781

Variation tolerance for AFDN Gene

Residual Variation Intolerance Score: 2.63% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.78; 58.16% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for AFDN Gene

Human Gene Mutation Database (HGMD)
AFDN
SNPedia medical, phenotypic, and genealogical associations of SNPs for
AFDN

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for AFDN Gene

Disorders for AFDN Gene

MalaCards: The human disease database

(5) MalaCards diseases for AFDN Gene - From: HGMD and DISEASES

Disorder Aliases PubMed IDs
central nervous system leukemia
  • leukemia of the cns
cleft lip/palate-ectodermal dysplasia syndrome
  • clped1
acrodermatitis chronica atrophicans
  • herxheimer disease
leukemia, acute monocytic
  • acute monocytic leukemia
leukemia, acute myeloid
  • aml
- elite association - COSMIC cancer census association via MalaCards
Search AFDN in MalaCards View complete list of genes associated with diseases

UniProtKB/Swiss-Prot

AFAD_HUMAN
  • Note=A chromosomal aberration involving AFDN is associated with acute leukemias. Translocation t(6;11)(q27;q23) with KMT2A/MLL1. The result is a rogue activator protein.

Additional Disease Information for AFDN

genes like me logo Genes that share disorders with AFDN: view

No data available for Genatlas for AFDN Gene

Publications for AFDN Gene

  1. Cloning of the ALL-1 fusion partner, the AF-6 gene, involved in acute myeloid leukemias with the t(6;11) chromosome translocation. (PMID: 8242616) Prasad R … Kuriyama K (Cancer research 1993) 2 3 4 22 58
  2. Nectin and afadin: novel organizers of intercellular junctions. (PMID: 12456712) Takai Y … Nakanishi H (Journal of cell science 2003) 3 4 22 58
  3. Human nectin3/PRR3: a novel member of the PVR/PRR/nectin family that interacts with afadin. (PMID: 11024295) Reymond N … Lopez M (Gene 2000) 3 4 22 58
  4. Complete genomic structure DNA polymorphisms, and alternative splicing of the human AF-6 gene. (PMID: 9679199) Saito S … Nakamura Y (DNA research : an international journal for rapid publication of reports on genes and genomes 1998) 3 4 22 58
  5. Junctional adhesion molecule A interacts with Afadin and PDZ-GEF2 to activate Rap1A, regulate beta1 integrin levels, and enhance cell migration. (PMID: 19176753) Severson EA … Parkos CA (Molecular biology of the cell 2009) 3 22 58

Products for AFDN Gene

Sources for AFDN Gene

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