Human Gene IGFBP6 (ENST00000301464.4_6) from GENCODE V47lift37
  Description: insulin like growth factor binding protein 6 (from RefSeq NM_002178.3)
Gencode Transcript: ENST00000301464.4_6
Gencode Gene: ENSG00000167779.9_12
Transcript (Including UTRs)
   Position: hg19 chr12:53,491,451-53,496,124 Size: 4,674 Total Exon Count: 4 Strand: +
Coding Region
   Position: hg19 chr12:53,491,502-53,495,951 Size: 4,450 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr12:53,491,451-53,496,124)mRNA (may differ from genome)Protein (240 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: IBP6_HUMAN
DESCRIPTION: RecName: Full=Insulin-like growth factor-binding protein 6; Short=IBP-6; Short=IGF-binding protein 6; Short=IGFBP-6; Flags: Precursor;
FUNCTION: IGF-binding proteins prolong the half-life of the IGFs and have been shown to either inhibit or stimulate the growth promoting effects of the IGFs on cell culture. They alter the interaction of IGFs with their cell surface receptors.
SUBCELLULAR LOCATION: Secreted.
PTM: O-linked glycans consist of hexose (probably Gal), N- acetylhexosamine (probably GalNAc) and sialic acid residues. O- glycosylated with core 1 or possibly core 8 glycans. O- glycosylated on one site only in the region AA 143-168 in cerebrospinal fluid.
SIMILARITY: Contains 1 IGFBP N-terminal domain.
SIMILARITY: Contains 1 thyroglobulin type-1 domain.
WEB RESOURCE: Name=NIEHS-SNPs; URL="http://egp.gs.washington.edu/data/igfbp6/";

-  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


-  MalaCards Disease Associations
  MalaCards Gene Search: IGFBP6
Diseases sorted by gene-association score: insulin-like growth factor i (4), rhabdomyosarcoma (4), exfoliative ichthyosis (3), ichthyosis bullosa of siemens (1)

-  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: 544.76 RPKM in Nerve - Tibial
Total median expression: 4161.17 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 -14.5051-0.284 Picture PostScript Text
3' UTR -57.60173-0.333 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
IPR009030 - Growth_fac_rcpt
IPR022326 - IGFBP-6
IPR000867 - IGFBP-like
IPR009168 - IGFBP1-6
IPR022321 - IGFBP_1-6_chordata
IPR000716 - Thyroglobulin_1

Pfam Domains:
PF00086 - Thyroglobulin type-1 repeat

SCOP Domains:
57610 - Thyroglobulin type-1 domain
57184 - Growth factor receptor domain

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1RMJ - NMR MuPIT


ModBase Predicted Comparative 3D Structure on P24592
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 orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005102 receptor binding
GO:0005520 insulin-like growth factor binding
GO:0019838 growth factor binding
GO:0031994 insulin-like growth factor I binding
GO:0031995 insulin-like growth factor II binding

Biological Process:
GO:0001558 regulation of cell growth
GO:0007165 signal transduction
GO:0008285 negative regulation of cell proliferation
GO:0043567 regulation of insulin-like growth factor receptor signaling pathway
GO:0044267 cellular protein metabolic process
GO:0090090 negative regulation of canonical Wnt signaling pathway

Cellular Component:
GO:0005576 extracellular region
GO:0005615 extracellular space
GO:0005737 cytoplasm
GO:0005794 Golgi apparatus
GO:0042568 insulin-like growth factor binary complex


-  Descriptions from all associated GenBank mRNAs
  LF210465 - JP 2014500723-A/17968: Polycomb-Associated Non-Coding RNAs.
LF212652 - JP 2014500723-A/20155: Polycomb-Associated Non-Coding RNAs.
LF213378 - JP 2014500723-A/20881: Polycomb-Associated Non-Coding RNAs.
LF214031 - JP 2014500723-A/21534: Polycomb-Associated Non-Coding RNAs.
BC010162 - Homo sapiens insulin-like growth factor binding protein 6, mRNA (cDNA clone MGC:19772 IMAGE:3640964), complete cds.
M62402 - Human insulin-like growth factor binding protein 6 (IGFBP6) mRNA, complete cds.
AK313158 - Homo sapiens cDNA, FLJ93653, Homo sapiens insulin-like growth factor binding protein 6 (IGFBP6),mRNA.
BC011708 - Homo sapiens insulin-like growth factor binding protein 6, mRNA (cDNA clone MGC:19771 IMAGE:3640827), complete cds.
BC003507 - Homo sapiens insulin-like growth factor binding protein 6, mRNA (cDNA clone MGC:10458 IMAGE:3611314), complete cds.
BC005007 - Homo sapiens insulin-like growth factor binding protein 6, mRNA (cDNA clone MGC:10459 IMAGE:3640269), complete cds.
DQ896243 - Synthetic construct Homo sapiens clone IMAGE:100010703; FLH191489.01L; RZPDo839D1067D insulin-like growth factor binding protein 6 (IGFBP6) gene, encodes complete protein.
DQ892995 - Synthetic construct clone IMAGE:100005625; FLH191493.01X; RZPDo839D1077D insulin-like growth factor binding protein 6 (IGFBP6) gene, encodes complete protein.
AB528507 - Synthetic construct DNA, clone: pF1KB6962, Homo sapiens IGFBP6 gene for insulin-like growth factor binding protein 6, without stop codon, in Flexi system.
KJ891445 - Synthetic construct Homo sapiens clone ccsbBroadEn_00839 IGFBP6 gene, encodes complete protein.
CR541791 - Homo sapiens full open reading frame cDNA clone RZPDo834C0331D for gene IGFBP6, insulin-like growth factor binding protein 6; complete cds, without stopcodon.
M69054 - Human insulin-like growth factor binding protein 6 (IGFBP6) mRNA, complete mature peptide.
LF338097 - JP 2014500723-A/145600: Polycomb-Associated Non-Coding RNAs.
AK074416 - Homo sapiens cDNA FLJ23836 fis, clone KAIA4592.
LF338098 - JP 2014500723-A/145601: Polycomb-Associated Non-Coding RNAs.
LF338099 - JP 2014500723-A/145602: Polycomb-Associated Non-Coding RNAs.
JD485103 - Sequence 466127 from Patent EP1572962.
LF338102 - JP 2014500723-A/145605: Polycomb-Associated Non-Coding RNAs.
JD138865 - Sequence 119889 from Patent EP1572962.
LF338103 - JP 2014500723-A/145606: Polycomb-Associated Non-Coding RNAs.
JD466634 - Sequence 447658 from Patent EP1572962.
MA449608 - JP 2018138019-A/21534: Polycomb-Associated Non-Coding RNAs.
MA446042 - JP 2018138019-A/17968: Polycomb-Associated Non-Coding RNAs.
MA448229 - JP 2018138019-A/20155: Polycomb-Associated Non-Coding RNAs.
MA448955 - JP 2018138019-A/20881: Polycomb-Associated Non-Coding RNAs.
MA573674 - JP 2018138019-A/145600: Polycomb-Associated Non-Coding RNAs.
MA573675 - JP 2018138019-A/145601: Polycomb-Associated Non-Coding RNAs.
MA573676 - JP 2018138019-A/145602: Polycomb-Associated Non-Coding RNAs.
MA573679 - JP 2018138019-A/145605: Polycomb-Associated Non-Coding RNAs.
MA573680 - JP 2018138019-A/145606: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
h_ghrelinPathway - Ghrelin: Regulation of Food Intake and Energy Homeostasis

Reactome (by CSHL, EBI, and GO)

Protein P24592 (Reactome details) participates in the following event(s):

R-HSA-381503 IGFBP6 binds IGF forming IGF:IGFBP6
R-HSA-381426 Regulation of Insulin-like Growth Factor (IGF) transport and uptake by Insulin-like Growth Factor Binding Proteins (IGFBPs)
R-HSA-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000301464.1, ENST00000301464.2, ENST00000301464.3, IBP6, IBP6_HUMAN, IGFBP6 , NM_002178, P24592, Q14492, uc317mva.1, uc317mva.2
UCSC ID: ENST00000301464.4_6
RefSeq Accession: NM_002178.3
Protein: P24592 (aka IBP6_HUMAN)

-  Gene Model Information
  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.