Human Gene GDF6 (ENST00000287020.7_7) from GENCODE V47lift37
  Description: growth differentiation factor 6 (from RefSeq NM_001001557.4)
Gencode Transcript: ENST00000287020.7_7
Gencode Gene: ENSG00000156466.11_10
Transcript (Including UTRs)
   Position: hg19 chr8:97,154,561-97,173,034 Size: 18,474 Total Exon Count: 2 Strand: -
Coding Region
   Position: hg19 chr8:97,156,791-97,172,920 Size: 16,130 Coding Exon Count: 2 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesGeneReviewsModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr8:97,154,561-97,173,034)mRNA (may differ from genome)Protein (455 aa)
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-  Comments and Description Text from UniProtKB
  ID: GDF6_HUMAN
DESCRIPTION: RecName: Full=Growth/differentiation factor 6; Short=GDF-6; AltName: Full=Growth/differentiation factor 16; Flags: Precursor;
FUNCTION: Required for normal formation of bones and joints in the limbs, skull, and axial skeleton. Plays a key role in establishing boundaries between skeletal elements during development (By similarity).
SUBUNIT: Homodimer; disulfide-linked (By similarity).
SUBCELLULAR LOCATION: Secreted (Probable).
DISEASE: Defects in GDF6 are the cause of Klippel-Feil syndrome type 1 (KFS1) [MIM:118100]. A skeletal disorder characterized by congenital fusion of cervical vertebrae. It is due to a failure in the normal segmentation of vertebrae during the early weeks of fetal development. The clinical triad consists of short neck, low posterior hairline, and limited neck movement. Deafness is a well- known feature of KFS and may be of sensorineural, conductive, or mixed type.
DISEASE: Note=A chromosomal aberration involving GDF6 has been found in a patient with Klippel-Feil syndrome (KFS). Paracentric inv(8)(q22;2q23.3).
DISEASE: Defects in GDF6 are the cause of microphthalmia isolated type 4 (MCOP4) [MIM:613094]. A disorder of eye formation, ranging from small size of a single eye to complete bilateral absence of ocular tissues. Ocular abnormalities like opacities of the cornea and lens, scaring of the retina and choroid, cataract and other abnormalities like cataract may also be present.
SIMILARITY: Belongs to the TGF-beta 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


-  MalaCards Disease Associations
  MalaCards Gene Search: GDF6
Diseases sorted by gene-association score: microphthalmia, isolated 4* (1329), klippel-feil syndrome 1, autosomal dominant* (1231), leber congenital amaurosis 17* (1230), microphthalmia with coloboma 6, digenic* (707), isolated klippel-feil syndrome* (247), klippel-feil syndrome 1* (130), leber congenital amaurosis* (92), klippel-feil syndrome (60), isolated microphthalmia* (38), segmentation syndrome 1 (18), multiple synostoses syndrome (17), microphthalmia (16), colobomatous microphthalmia* (8), anophthalmia/microphthalmia (5), coloboma (3)
* = Manually curated disease association

-  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: 1.57 RPKM in Cells - Cultured fibroblasts
Total median expression: 17.26 RPKM



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

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -40.00114-0.351 Picture PostScript Text
3' UTR -675.602230-0.303 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
IPR001839 - TGF-b_C
IPR001111 - TGF-b_N
IPR015615 - TGF-beta-rel
IPR017948 - TGFb_CS

Pfam Domains:
PF00019 - Transforming growth factor beta like domain
PF00688 - TGF-beta propeptide

SCOP Domains:
57501 - Cystine-knot cytokines

ModBase Predicted Comparative 3D Structure on Q6KF10
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    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005125 cytokine activity
GO:0005160 transforming growth factor beta receptor binding
GO:0005515 protein binding
GO:0008083 growth factor activity
GO:0042803 protein homodimerization activity

Biological Process:
GO:0006915 apoptotic process
GO:0007275 multicellular organism development
GO:0010469 regulation of receptor activity
GO:0010862 positive regulation of pathway-restricted SMAD protein phosphorylation
GO:0030509 BMP signaling pathway
GO:0032332 positive regulation of chondrocyte differentiation
GO:0032924 activin receptor signaling pathway
GO:0042981 regulation of apoptotic process
GO:0043408 regulation of MAPK cascade
GO:0045444 fat cell differentiation
GO:0045666 positive regulation of neuron differentiation
GO:0045893 positive regulation of transcription, DNA-templated
GO:0048468 cell development
GO:0060389 pathway-restricted SMAD protein phosphorylation
GO:0060395 SMAD protein signal transduction
GO:1900745 positive regulation of p38MAPK cascade
GO:1990009 retinal cell apoptotic process

Cellular Component:
GO:0005576 extracellular region
GO:0005615 extracellular space


-  Descriptions from all associated GenBank mRNAs
  HQ448290 - Synthetic construct Homo sapiens clone IMAGE:100071694; CCSB006050_02 MTERF domain containing 1 (MTERFD1) gene, encodes complete protein.
KJ893770 - Synthetic construct Homo sapiens clone ccsbBroadEn_03164 MTERFD1 gene, encodes complete protein.
AJ537424 - Homo sapiens mRNA for GDF6 gene (growth/differentiation factor 6 precursor).
BC043222 - Homo sapiens growth differentiation factor 6, mRNA (cDNA clone IMAGE:5295441), partial cds.
JD304202 - Sequence 285226 from Patent EP1572962.
JD289098 - Sequence 270122 from Patent EP1572962.
KJ892362 - Synthetic construct Homo sapiens clone ccsbBroadEn_01756 UQCRB gene, encodes complete protein.
JD167984 - Sequence 149008 from Patent EP1572962.
JD565333 - Sequence 546357 from Patent EP1572962.
JD303804 - Sequence 284828 from Patent EP1572962.
JD300050 - Sequence 281074 from Patent EP1572962.
JD093229 - Sequence 74253 from Patent EP1572962.
JD468917 - Sequence 449941 from Patent EP1572962.
JD471182 - Sequence 452206 from Patent EP1572962.
JD168803 - Sequence 149827 from Patent EP1572962.
JD483599 - Sequence 464623 from Patent EP1572962.
JD294682 - Sequence 275706 from Patent EP1572962.
JD532779 - Sequence 513803 from Patent EP1572962.
JD508284 - Sequence 489308 from Patent EP1572962.
JD260475 - Sequence 241499 from Patent EP1572962.
JD209447 - Sequence 190471 from Patent EP1572962.
JD107056 - Sequence 88080 from Patent EP1572962.
JD482142 - Sequence 463166 from Patent EP1572962.
JD340287 - Sequence 321311 from Patent EP1572962.
JD445337 - Sequence 426361 from Patent EP1572962.
JD234467 - Sequence 215491 from Patent EP1572962.
JD073638 - Sequence 54662 from Patent EP1572962.
JD506946 - Sequence 487970 from Patent EP1572962.
JD182052 - Sequence 163076 from Patent EP1572962.
JD498074 - Sequence 479098 from Patent EP1572962.
JD538925 - Sequence 519949 from Patent EP1572962.
JD393019 - Sequence 374043 from Patent EP1572962.
JD097714 - Sequence 78738 from Patent EP1572962.
JD252655 - Sequence 233679 from Patent EP1572962.
JD214341 - Sequence 195365 from Patent EP1572962.
JD479522 - Sequence 460546 from Patent EP1572962.
JD180271 - Sequence 161295 from Patent EP1572962.
JD426309 - Sequence 407333 from Patent EP1572962.
JD140958 - Sequence 121982 from Patent EP1572962.
JD468919 - Sequence 449943 from Patent EP1572962.
JD431509 - Sequence 412533 from Patent EP1572962.
JD276283 - Sequence 257307 from Patent EP1572962.
BC127948 - Homo sapiens growth differentiation factor 6, mRNA (cDNA clone MGC:158101 IMAGE:40132947), complete cds.
BC127947 - Homo sapiens growth differentiation factor 6, mRNA (cDNA clone MGC:158100 IMAGE:40132943), complete cds.
BC156445 - Synthetic construct Homo sapiens clone IMAGE:100063013, MGC:190664 growth differentiation factor 6 (GDF6) mRNA, encodes complete protein.
JD336413 - Sequence 317437 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: BMP13, ENST00000287020.1, ENST00000287020.2, ENST00000287020.3, ENST00000287020.4, ENST00000287020.5, ENST00000287020.6, GDF16, GDF6_HUMAN, NM_001001557, Q6KF10, Q6PI58, uc317kls.1, uc317kls.2
UCSC ID: ENST00000287020.7_7
RefSeq Accession: NM_001001557.4
Protein: Q6KF10 (aka GDF6_HUMAN)

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene GDF6:
lca-ov (Leber Congenital Amaurosis / Early-Onset Severe Retinal Dystrophy Overview)

-  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.