Human Gene FAM13B (uc003lbz.2) Description and Page Index
  Description: Homo sapiens family with sequence similarity 13, member B (FAM13B), transcript variant 1, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr5:137,273,642-137,368,802 Size: 95,161 Total Exon Count: 23 Strand: -
Coding Region
   Position: hg19 chr5:137,275,914-137,354,800 Size: 78,887 Coding Exon Count: 21 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr5:137,273,642-137,368,802)mRNA (may differ from genome)Protein (915 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
CGAPEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHGNCHPRDLynxMGIneXtProt
OMIMPubMedReactomeStanford SOURCETreefamUniProtKB

-  Comments and Description Text from UniProtKB
  ID: FA13B_HUMAN
DESCRIPTION: RecName: Full=Protein FAM13B; AltName: Full=GAP-like protein N61;
SIMILARITY: Belongs to the FAM13 family.
SIMILARITY: Contains 1 Rho-GAP domain.
SEQUENCE CAUTION: Sequence=AAF67482.1; Type=Frameshift; Positions=734; Sequence=AAF67482.1; Type=Miscellaneous discrepancy;

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  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: 12.27 RPKM in Testis
Total median expression: 265.69 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 -194.87534-0.365 Picture PostScript Text
3' UTR -591.142272-0.260 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
IPR008936 - Rho_GTPase_activation_prot
IPR000198 - RhoGAP_dom

Pfam Domains:
PF00620 - RhoGAP domain

SCOP Domains:
48350 - GTPase activation domain, GAP

ModBase Predicted Comparative 3D Structure on Q9NYF5
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 orthologNo orthologGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
  Ensembl   
  Protein Sequence   
  Alignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005096 GTPase activator activity

Biological Process:
GO:0007165 signal transduction
GO:0043547 positive regulation of GTPase activity
GO:0051056 regulation of small GTPase mediated signal transduction

Cellular Component:
GO:0005829 cytosol


-  Descriptions from all associated GenBank mRNAs
  LF385245 - JP 2014500723-A/192748: Polycomb-Associated Non-Coding RNAs.
AF251038 - Homo sapiens GAP-like protein (N61) mRNA, complete cds.
BC041335 - Homo sapiens chromosome 5 open reading frame 5, mRNA (cDNA clone IMAGE:5272612).
BC048965 - Homo sapiens family with sequence similarity 13, member B, mRNA (cDNA clone MGC:57159 IMAGE:5265611), complete cds.
AK314224 - Homo sapiens cDNA, FLJ94962.
MA620822 - JP 2018138019-A/192748: Polycomb-Associated Non-Coding RNAs.
AF157316 - Homo sapiens kinesin heavy chain-like protein (KHCHP) mRNA, complete cds.
AL833699 - Homo sapiens mRNA; cDNA DKFZp667F249 (from clone DKFZp667F249).
JD509938 - Sequence 490962 from Patent EP1572962.
LF343043 - JP 2014500723-A/150546: Polycomb-Associated Non-Coding RNAs.
JD110587 - Sequence 91611 from Patent EP1572962.
JD187931 - Sequence 168955 from Patent EP1572962.
JD475760 - Sequence 456784 from Patent EP1572962.
JD424400 - Sequence 405424 from Patent EP1572962.
JD552682 - Sequence 533706 from Patent EP1572962.
BC056887 - Homo sapiens family with sequence similarity 13, member B, mRNA (cDNA clone MGC:65022 IMAGE:6148274), complete cds.
JD162751 - Sequence 143775 from Patent EP1572962.
JD250461 - Sequence 231485 from Patent EP1572962.
JD556558 - Sequence 537582 from Patent EP1572962.
JD556178 - Sequence 537202 from Patent EP1572962.
JD404057 - Sequence 385081 from Patent EP1572962.
JD184681 - Sequence 165705 from Patent EP1572962.
JD188459 - Sequence 169483 from Patent EP1572962.
JD318904 - Sequence 299928 from Patent EP1572962.
JD271464 - Sequence 252488 from Patent EP1572962.
JD359115 - Sequence 340139 from Patent EP1572962.
JD516183 - Sequence 497207 from Patent EP1572962.
JD050291 - Sequence 31315 from Patent EP1572962.
JD350422 - Sequence 331446 from Patent EP1572962.
JD539128 - Sequence 520152 from Patent EP1572962.
JD176585 - Sequence 157609 from Patent EP1572962.
JD350645 - Sequence 331669 from Patent EP1572962.
JD130954 - Sequence 111978 from Patent EP1572962.
JD306094 - Sequence 287118 from Patent EP1572962.
JD556682 - Sequence 537706 from Patent EP1572962.
JD410192 - Sequence 391216 from Patent EP1572962.
JD283566 - Sequence 264590 from Patent EP1572962.
JD521652 - Sequence 502676 from Patent EP1572962.
EU832118 - Synthetic construct Homo sapiens clone HAIB:100067147; DKFZo008C0825 chromosome 5 open reading frame 5 protein (C5orf5) gene, encodes complete protein.
EU832212 - Synthetic construct Homo sapiens clone HAIB:100067241; DKFZo004C0826 chromosome 5 open reading frame 5 protein (C5orf5) gene, encodes complete protein.
AB384671 - Synthetic construct DNA, clone: pF1KB0031, Homo sapiens C5orf5 gene for C5orf5 protein, complete cds, without stop codon, in Flexi system.
AK130245 - Homo sapiens cDNA FLJ26735 fis, clone PRS00519.
LF343044 - JP 2014500723-A/150547: Polycomb-Associated Non-Coding RNAs.
LF343045 - JP 2014500723-A/150548: Polycomb-Associated Non-Coding RNAs.
LF343048 - JP 2014500723-A/150551: Polycomb-Associated Non-Coding RNAs.
LF343051 - JP 2014500723-A/150554: Polycomb-Associated Non-Coding RNAs.
LF343058 - JP 2014500723-A/150561: Polycomb-Associated Non-Coding RNAs.
LF343060 - JP 2014500723-A/150563: Polycomb-Associated Non-Coding RNAs.
LF343062 - JP 2014500723-A/150565: Polycomb-Associated Non-Coding RNAs.
JD155159 - Sequence 136183 from Patent EP1572962.
MA578620 - JP 2018138019-A/150546: Polycomb-Associated Non-Coding RNAs.
MA578621 - JP 2018138019-A/150547: Polycomb-Associated Non-Coding RNAs.
MA578622 - JP 2018138019-A/150548: Polycomb-Associated Non-Coding RNAs.
MA578625 - JP 2018138019-A/150551: Polycomb-Associated Non-Coding RNAs.
MA578628 - JP 2018138019-A/150554: Polycomb-Associated Non-Coding RNAs.
MA578635 - JP 2018138019-A/150561: Polycomb-Associated Non-Coding RNAs.
MA578637 - JP 2018138019-A/150563: Polycomb-Associated Non-Coding RNAs.
MA578639 - JP 2018138019-A/150565: Polycomb-Associated Non-Coding RNAs.
JD440527 - Sequence 421551 from Patent EP1572962.
JD484786 - Sequence 465810 from Patent EP1572962.
JD390176 - Sequence 371200 from Patent EP1572962.
JD227538 - Sequence 208562 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q9NYF5 (Reactome details) participates in the following event(s):

R-HSA-194922 GAPs inactivate Rho GTPase:GTP by hydrolysis
R-HSA-194840 Rho GTPase cycle
R-HSA-194315 Signaling by Rho GTPases
R-HSA-162582 Signal Transduction

-  Other Names for This Gene
  Alternate Gene Symbols: C5orf5, D3DQB5, FA13B_HUMAN, FAM13B1, NM_016603, NP_057687, Q3ZCR0, Q6PGQ2, Q9NYF5, Q9P0I7
UCSC ID: uc003lbz.2
RefSeq Accession: NM_016603
Protein: Q9NYF5 (aka FA13B_HUMAN)
CCDS: CCDS4195.1, CCDS47269.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_016603.2
exon count: 23CDS single in 3' UTR: no RNA size: 5558
ORF size: 2748CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 5630.00frame shift in genome: no % Coverage: 99.93
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.