Human Gene LTBP4 (ENST00000396819.8_12) from GENCODE V47lift37
  Description: latent transforming growth factor beta binding protein 4, transcript variant 3 (from RefSeq NM_001042545.2)
Gencode Transcript: ENST00000396819.8_12
Gencode Gene: ENSG00000090006.18_17
Transcript (Including UTRs)
   Position: hg19 chr19:41,107,275-41,135,723 Size: 28,449 Total Exon Count: 31 Strand: +
Coding Region
   Position: hg19 chr19:41,107,294-41,135,455 Size: 28,162 Coding Exon Count: 31 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:41,107,275-41,135,723)mRNA (may differ from genome)Protein (1556 aa)
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UniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: LTBP4_HUMAN
DESCRIPTION: RecName: Full=Latent-transforming growth factor beta-binding protein 4; Short=LTBP-4; Flags: Precursor;
FUNCTION: May be involved in the assembly, secretion and targeting of TGFB1 to sites at which it is stored and/or activated. May play critical roles in controlling and directing the activity of TGFB1. May have a structural role in the extra cellular matrix (ECM) (By similarity).
SUBUNIT: Forms part of the large latent transforming growth factor beta precursor complex; removal is essential for activation of complex. Interacts with LTBP1 and TGFB1. Binds to FBN1 (By similarity).
INTERACTION: O15265:ATXN7; NbExp=2; IntAct=EBI-947718, EBI-708350; O00555:CACNA1A; NbExp=2; IntAct=EBI-947718, EBI-766279;
SUBCELLULAR LOCATION: Secreted, extracellular space, extracellular matrix.
TISSUE SPECIFICITY: Highly expressed in heart, skeletal muscle, pancreas, uterus, and small intestine. Weakly expressed in placenta and lung.
DEVELOPMENTAL STAGE: Very low expression in fetal brain, liver, heart, spleen and thymus.
PTM: Contains hydroxylated asparagine residues (By similarity).
DISEASE: Defects in LTBP4 are the cause of Urban-Rifkin-Davis syndrome (URDS) [MIM:613177]; also known as Cutis laxa with severe pulmonary gastrointestinal and urinary abnormalities. URDS is a syndrome characterized by disrupted pulmonary, gastrointestinal, urinary, musculoskeletal, craniofacial and dermal development. Clinical features include cutis laxa, mild cardiovascular lesions, respiratory distress with cystic and atelectatic changes in the lungs, and diverticulosis, tortuosity and stenosis at various levels of the intestinal tract. Craniofacial features include microretrognathia, flat midface, receding forehead and wide fontanelles.
SIMILARITY: Belongs to the LTBP family.
SIMILARITY: Contains 16 EGF-like domains.
SIMILARITY: Contains 4 TB (TGF-beta binding) domains.

-  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: LTBP4
Diseases sorted by gene-association score: cutis laxa, autosomal recessive, type ic* (1650), duchenne muscular dystrophy* (42), cutis laxa (16), arterial tortuosity syndrome (11), popliteal pterygium syndrome 1 (7), muscular dystrophy (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: 238.52 RPKM in Artery - Aorta
Total median expression: 3107.39 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 -5.6019-0.295 Picture PostScript Text
3' UTR -91.50268-0.341 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
IPR000742 - EG-like_dom
IPR001881 - EGF-like_Ca-bd
IPR013032 - EGF-like_CS
IPR000152 - EGF-type_Asp/Asn_hydroxyl_site
IPR018097 - EGF_Ca-bd_CS
IPR017878 - TB_dom

Pfam Domains:
PF00683 - TB domain
PF07645 - Calcium-binding EGF domain
PF12661 - Human growth factor-like EGF
PF12662 - Complement Clr-like EGF-like

SCOP Domains:
57581 - TB module/8-cys domain
57196 - EGF/Laminin
57184 - Growth factor receptor domain

ModBase Predicted Comparative 3D Structure on Q8N2S1
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:0005024 transforming growth factor beta-activated receptor activity
GO:0005178 integrin binding
GO:0005509 calcium ion binding
GO:0005515 protein binding
GO:0005539 glycosaminoglycan binding
GO:0019838 growth factor binding
GO:0050431 transforming growth factor beta binding

Biological Process:
GO:0001558 regulation of cell growth
GO:0006457 protein folding
GO:0007179 transforming growth factor beta receptor signaling pathway
GO:0007275 multicellular organism development
GO:0017015 regulation of transforming growth factor beta receptor signaling pathway
GO:0030162 regulation of proteolysis
GO:0030252 growth hormone secretion
GO:0045595 regulation of cell differentiation
GO:0046879 hormone secretion

Cellular Component:
GO:0005576 extracellular region
GO:0005615 extracellular space
GO:0031012 extracellular matrix


-  Descriptions from all associated GenBank mRNAs
  Y13622 - Homo sapiens mRNA for latent transforming growth factor-beta binding protein-4.
AF051345 - Homo sapiens latent transforming growth factor-beta binding protein 4L mRNA, complete cds.
AK309484 - Homo sapiens cDNA, FLJ99525.
AF051344 - Homo sapiens latent transforming growth factor-beta binding protein 4S mRNA, complete cds.
AK128191 - Homo sapiens cDNA FLJ46318 fis, clone TESTI4041984, highly similar to Homo sapiens latent transforming growth factor beta binding protein 4 (LTBP4), mRNA.
AK303613 - Homo sapiens cDNA FLJ58718 complete cds, moderately similar to Homo sapiens latent transforming growth factor beta binding protein 4 (LTBP4), mRNA.
AF054502 - Homo sapiens clone IMAGE Consortium 302831 latent transforming growth factor-beta binding protein 4 mRNA, partial cds.
AK074499 - Homo sapiens cDNA FLJ90018 fis, clone HEMBA1000732, highly similar to Homo sapiens mRNA for latent transforming growth factor-beta binding protein-4.
AF054501 - Homo sapiens latent transforming growth factor-beta binding protein 4 mRNA, partial cds.
AK304612 - Homo sapiens cDNA FLJ58723 complete cds, highly similar to Homo sapiens latent transforming growth factor beta binding protein 4 (LTBP4), mRNA.
JD019466 - Sequence 490 from Patent EP1572962.
JD035645 - Sequence 16669 from Patent EP1572962.
JD210400 - Sequence 191424 from Patent EP1572962.
JD406281 - Sequence 387305 from Patent EP1572962.
JD090176 - Sequence 71200 from Patent EP1572962.
JD210548 - Sequence 191572 from Patent EP1572962.

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

Protein Q8N2S1 (Reactome details) participates in the following event(s):

R-HSA-2395364 LTBP4 binds TGF-Beta-1
R-HSA-2328033 Fibrillin-1 binds latent TGF-beta
R-HSA-2129379 Molecules associated with elastic fibres
R-HSA-1566948 Elastic fibre formation
R-HSA-1474244 Extracellular matrix organization

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000396819.1, ENST00000396819.2, ENST00000396819.3, ENST00000396819.4, ENST00000396819.5, ENST00000396819.6, ENST00000396819.7, LTBP4_HUMAN, NM_001042545, O00508, O75412, O75413, Q8N2S1, uc318ymv.1, uc318ymv.2
UCSC ID: ENST00000396819.8_12
RefSeq Accession: NM_001042545.2
Protein: Q8N2S1 (aka LTBP4_HUMAN)

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene LTBP4:
cdh-ov (Congenital Diaphragmatic Hernia Overview)
ltbp4-cutis-laxa (LTBP4-Related Cutis Laxa)

-  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.