Human Gene FAM71B (uc003lwn.3)
  Description: Homo sapiens family with sequence similarity 71, member B (FAM71B), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr5:156,589,344-156,593,279 Size: 3,936 Total Exon Count: 2 Strand: -
Coding Region
   Position: hg19 chr5:156,589,458-156,593,179 Size: 3,722 Coding Exon Count: 2 

Page IndexSequence and LinksUniProtKB CommentsPrimersGenetic AssociationsMalaCards
CTDGene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein Structure
Other SpeciesGO AnnotationsmRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr5:156,589,344-156,593,279)mRNA (may differ from genome)Protein (605 aa)
Gene SorterGenome BrowserOther Species FASTATable SchemaAlphaFoldBioGPS
EnsemblEntrez GeneExonPrimerGeneCardsGeneNetworkH-INV
HGNCHPRDLynxMalacardsMGIneXtProt
PubMedTreefamUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: FA71B_HUMAN
DESCRIPTION: RecName: Full=Protein FAM71B;
FUNCTION: May be involved in RNA biogenesis.
SUBUNIT: Interacts with FRG1.
SUBCELLULAR LOCATION: Nucleus. Note=Cajal body and speckle localization.
SIMILARITY: Belongs to the FAM71 family.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): FAM71B
CDC HuGE Published Literature: FAM71B
Positive Disease Associations: Iron
Related Studies:
  1. Iron
    , , . [PubMed 0]

-  MalaCards Disease Associations
  MalaCards Gene Search: FAM71B
Diseases sorted by gene-association score: facioscapulohumeral muscular dystrophy 1 (1)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 37.81 RPKM in Testis
Total median expression: 37.83 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -33.70100-0.337 Picture PostScript Text
3' UTR -26.86114-0.236 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR022168 - DUF3699

Pfam Domains:
PF12480 - Protein of unknown function (DUF3699)

ModBase Predicted Comparative 3D Structure on Q8TC56
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
 Gene Details    
 Gene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Cellular Component:
GO:0005634 nucleus


-  Descriptions from all associated GenBank mRNAs
  BC022035 - Homo sapiens family with sequence similarity 71, member B, mRNA (cDNA clone MGC:26988 IMAGE:4826350), complete cds.
BC025409 - Homo sapiens family with sequence similarity 71, member B, mRNA (cDNA clone MGC:33605 IMAGE:4825198), complete cds.
BC025397 - Homo sapiens family with sequence similarity 71, member B, mRNA (cDNA clone MGC:26998 IMAGE:4827541), complete cds.
BC025998 - Homo sapiens family with sequence similarity 71, member B, mRNA (cDNA clone MGC:27022 IMAGE:4836822), complete cds.
AK057543 - Homo sapiens cDNA FLJ32981 fis, clone TESTI3000002, weakly similar to L.mexicana lmsap2 gene for secreted acid phosphatase 2 (SAP2).
HM005381 - Homo sapiens clone HTL-T-68 testicular tissue protein Li 68 mRNA, complete cds.
AY973323 - Homo sapiens HSD-51 mRNA, complete cds.
KJ900306 - Synthetic construct Homo sapiens clone ccsbBroadEn_09700 FAM71B gene, encodes complete protein.
JF432440 - Synthetic construct Homo sapiens clone IMAGE:100073648 family with sequence similarity 71, member B (FAM71B) gene, encodes complete protein.
KJ900307 - Synthetic construct Homo sapiens clone ccsbBroadEn_09701 FAM71B-like gene, encodes complete protein.
KJ906438 - Synthetic construct Homo sapiens clone ccsbBroadEn_16108 FAM71B gene, encodes complete protein.
CU692472 - Synthetic construct Homo sapiens gateway clone IMAGE:100017423 5' read FAM71B mRNA.
JD026832 - Sequence 7856 from Patent EP1572962.
JD031299 - Sequence 12323 from Patent EP1572962.
JD031791 - Sequence 12815 from Patent EP1572962.
AF465821 - Homo sapiens unknown protein mRNA, complete cds.
JD026330 - Sequence 7354 from Patent EP1572962.
JD030420 - Sequence 11444 from Patent EP1572962.
JD026835 - Sequence 7859 from Patent EP1572962.
JD031782 - Sequence 12806 from Patent EP1572962.
JD333176 - Sequence 314200 from Patent EP1572962.
JD062848 - Sequence 43872 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: FA71B_HUMAN, HSD-51, HSD51, NM_130899, NP_570969, Q1EDD9, Q8TC56, Q8TC64, Q96LY8
UCSC ID: uc003lwn.3
RefSeq Accession: NM_130899
Protein: Q8TC56 (aka FA71B_HUMAN)
CCDS: CCDS4335.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_130899.2
exon count: 2CDS single in 3' UTR: no RNA size: 2046
ORF size: 1818CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 3757.00frame shift in genome: no % Coverage: 99.32
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.