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FAM228B Gene

protein-coding   GIFtS: 24
GCID: GC02P024302

Family With Sequence Similarity 228, Member B

  Search for FAM228B
at  

(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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This gene clusters with an RNA gene
Subcategory (RNA class): antisense

Quality score for the ORGUL clustered with this gene is 3

Aliases
Family With Sequence Similarity 228, Member B1 2
Protein FAM228B2
UPF0638 Protein B2

External Ids:    HGNC: 247361   Entrez Gene: 3751902   Ensembl: ENSG000002196267   UniProtKB: P0C8753   
ORGUL members:         

Export aliases for FAM228B gene to outside databases


(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 FAM228B Gene:
FAM228B (family with sequence similarity 228, member B) is a protein-coding gene. An important paralog of this gene is ENSG00000266118.


(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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Regulatory elements:
   Search for regulatory transcription factor binding sites for FAM228B
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for FAM228B

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat FAM228B


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

Entrez Gene cytogenetic band: 2p23.3   Ensembl cytogenetic band:  2p23.3   HGNC cytogenetic band: 2p23.3

FAM228B Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
FAM228B gene location

GeneLoc information about chromosome 2         GeneLoc Exon Structure

GeneLoc location for GC02P024302:  view genomic region     (about GC identifiers)

Start:
24,299,396 bp from pter      End:
24,392,509 bp from pter
Size:
93,114 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, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: F228B_HUMAN, P0C875 (See protein sequence)
Recommended Name: Protein FAM228B  
Size: 321 amino acids; 37405 Da
Sequence caution: Sequence=AK055413; Type=Frameshift; Positions=267;
Alternative splicing: 2 isoforms:  P0C875-1   P0C875-2   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for FAM228B: NX_P0C875

REFSEQ proteins (2 alternative transcripts): 
NP_001139182.1  NP_001278257.1  

ENSEMBL proteins: 
 ENSP00000383879   ENSP00000394034   ENSP00000403572   ENSP00000403796   ENSP00000389043  

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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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ProtoNet protein and cluster: P0C875

UniProtKB/Swiss-Prot: F228B_HUMAN, P0C875
Similarity: Belongs to the FAM228 family


(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, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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Phenotypes:
     1 GenomeRNAi human phenotype for FAM228B:
 Decreased p24 protein expressi 

Animal Models:
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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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(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 FAM228B
Interactions:

    Search GeneGlobe Interaction Network for FAM228B

(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 FAM228B (F228B)



(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, Primers from OriGene, and/or QIAGEN )
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REFSEQ mRNAs for FAM228B gene (3 alternative transcripts): 
NM_198553.1  NM_001145710.1  NM_001291328.1  

10 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000469867 ENST00000461972 ENST00000468799(uc002rew.3) ENST00000486967
ENST00000460686 ENST00000407625 ENST00000417898 ENST00000457370 ENST00000448919
ENST00000420135(uc010ykl.2)
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Selected AceView cDNA sequences (see all 116):

BM722814 CR597946 AA625774 BC039372 AI807470 AK092423 BG150454 AA913705 
AI191152 BC050462 AA906368 AI700631 AW612585 BF435279 AK055413 BM479211 
AI138754 AI827757 BC029459 AA917801 NM_198553 BU958748 AI480257 BG722091 

GeneLoc Exon Structure


(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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See probesets specificity/sensitivity at GeneAnnot
CGAP TAG: --

FAM228B Protein expression data from MOPED1, PaxDb2 and MaxQB3 --
    Custom PCR Arrays for FAM228B
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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 FAM228B gene from Selected species (see all 11)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia Fam228b1 , 5 RIKEN cDNA A830093I24 gene5
family with sequence similarity 228, member B1
84.13(n)1
79.04(a)1
  12 (2.09 cM)5
2079211  NM_175431.41  NP_780640.21 
 47462165 
chicken
(Gallus gallus)
Aves LOC4219781 UPF0638 protein B-like 57(n)
42.51(a)
  421978  XM_419988.4  XP_419988.1 
tropical clawed frog
(Xenopus tropicalis)
Amphibia fam228b1 family with sequence similarity 228, member B 51.52(n)
41.36(a)
  100145040  NM_001126582.1  NP_001120054.1 
zebrafish
(Danio rerio)
Actinopterygii fam228a1 family with sequence similarity 228, member A 48.28(n)
34.55(a)
  569576  NM_001045186.2  NP_001038651.2 


ENSEMBL Gene Tree for FAM228B (if available)
TreeFam Gene Tree for FAM228B (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for FAM228B gene
ENSG000002661182  FAM228A2  
2 SIMAP similar genes for FAM228B using alignment to 6 protein entries:     F228B_HUMAN (see all proteins):
UTY    FAM228A

FAM228B for paralogs           About GeneDecksing



(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 FAM228B (see all 861)    About this table    
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 2 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs669244161,2
C--24118477(+) TCTTT-/CCC/CC
G
/CCGCCC
CCCCC
3 -- int1 cds11NA 2
rs1116998631,2
C--24348254(+) TCTCAC/AATAAA 1 -- int11Minor allele frequency- A:0.50CSA 2
rs1381610301,2
--24348309(+) TCACCA/GCAATC 1 -- int10--------
rs774196001,2
C,F--24348364(+) CTGTTG/ATAATC 1 -- int11Minor allele frequency- A:0.07NA 120
rs1898276821,2
C--24348382(+) CACATC/TCCCCC 1 -- int10--------
rs1409899891,2
--24348410(+) TTTCTA/CTTTCT 1 -- int10--------
rs1448051381,2
--24348514(+) CAACCA/TCTACC 1 -- int10--------
rs1816651861,2
--24348680(+) TGCCCG/TCCTCG 1 -- int10--------
rs1173419891,2
C,F--24348791(+) ATCTTA/CCAGTA 1 -- int11Minor allele frequency- C:0.03EA 120
rs1385709851,2
--24348804(+) TATTTC/GTTTTC 1 -- int10--------

HapMap Linkage Disequilibrium report for FAM228B (24299396 - 24392509 bp)

Structural Variations
      Database of Genomic Variants (DGV) variations for FAM228B: --
Site Specific Mutation Identification with PCR Assays
SeqTarget long-range PCR primers for resequencing FAM228B
DNA2.0 Custom Variant and Variant Library Synthesis for FAM228B

(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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(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 FAM228B gene integrated from 10 sources:
(articles sorted by number of sources associating them with FAM228B)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 2004)
  2. Identification of host proteins required for HIV infection through a functional genomic screen. (PubMed id 18187620)1 Brass A.L....Elledge S.J. (Science 2008)
  3. hORFeome v3.1: a resource of human open reading frames representing over 10,000 human genes. (PubMed id 17207965)1 Lamesch P.... Vidal M. (Genomics 2007)
  4. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. (PubMed id 15815621)2 Hillier L.W.... Wilson R.K. (Nature 2005)
  5. Transcriptome characterization elucidates signaling networks that control human ES cell growth and differentiation. (PubMed id 15146197)1 Brandenberger R.... Stanton L.W. (Nat. Biotechnol. 2004)
  6. 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)
  7. Normalization and subtraction: two approaches to facilitate gene discovery. (PubMed id 8889548)1 Bonaldo M.F.... Soares M.B. (Genome Res. 1996)

(in PubMed, OMIM, and NCBI Bookshelf)
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 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, Kegg, and/or H-InvDB)
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Entrez Gene: 375190 HGNC: 24736 AceView: FLJ30851 Ensembl:ENSG00000219626 euGenes: HUgn375190
ECgene: FAM228B H-InvDB: FAM228B

(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 FAM228B 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 FAM228B gene:
Search GeneIP for patents involving FAM228B

GeneCards and IP:
Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



(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, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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