HsaINT0097624 @ hg19
Intron Retention
Gene
ENSG00000090006 | LTBP4
Description
latent transforming growth factor beta binding protein 4 [Source:HGNC Symbol;Acc:6717]
Coordinates
chr19:41133610-41135725:+
Coord C1 exon
chr19:41133610-41133762
Coord A exon
chr19:41133763-41135300
Coord C2 exon
chr19:41135301-41135725
Length
1538 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGG
5' ss Score
6.9
3' ss Seq
TCGTTGTCTCCCCTCCGCAGACA
3' ss Score
11.79
Exon sequences
Seq C1 exon
GTTCCCTGGCTGAGCCCTACGAGGAGCTGGAGGCGGAGGAGTGCGGGATCCTGGACGGCTGCACCAACGGCCGCTGCGTGCGCGTCCCCGAAGGCTTCACCTGCCGTTGCTTCGACGGCTACCGCCTGGACATGACCCGCATGGCCTGCGTTG
Seq A exon
GTGAGGGCGGGCCCGGGGCCAGCATGCGCAGGGAGAGGCGAGGCTTGTCCAGGGAGGGTGGAAGCCCTGACTAGGGGGTGCTGGTCAGGGACGGGAAAGGACCTCACTACAGGGGACGGGCCAGCGCAAAAGGGAGGAGTAATTCTTCCACCTGGGTGGGGCTTGACTGAAGAAGGCGGAGTCAGGGTGCCAGCAGGGCAGGGCTTAACCACGGGGCTGGAGCCGGGCCTTGAAGCAGGATAGAGGAATAGAATAGTGCTGGTGTGACTTGCAGTGCTACCTTGGGCAGTCTGCAGGACCTCTTTGGAGAGCCTCAGTCTTCCCACCTGTAAAATGGGAATATTAATCAAGTCTGCCTAATTTGGATGGCAGTAAAGCCAAGTGATTAAAATCAAGAACATAGCCGGGCGCAGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCATTAGGTCAGGAGTTTGAGACCAGCCTGGCCAATATGGTGAAACCCCGTCTCTAAAAATACAAAATTAGCCGGGTGTGGTGGTGCATGCGTGTAATCCCAGCTACTCGGGAGGAACCCAGGAGGCAGAGGTTGTGGTGAGCCAAGATCGCGCCATTGCACTCCAGCCTGGGCAATAAGAGCAAAACTCCGTCTCAAAAAACAAACAAAACTCGAGGAGGTCACATAGACCTCAGACTCAGTCCAGCAACTTGCTGTGTGACGCTGGACAGGTCACTGTCCCTTACCTAATTTTTCTGATATGAAAAATGGCTACAGTCAAAGATCCCATTTCATAGAATTGCGAATATTATTAACACTGATTTACAATAACATTGAGAGTCATGTGCAAATGGAGGCACATGCGTAAAACGAATTACAGTACCTACCTAATAGGGGTATTAGAAGGACAAAGTTAATACTTGTAATGTGCTTAAAACAATGCATGAACATTTATTGTTGTTGACACCATCATCAGTATTTTTTTCTTCTTTTTTTTTTCTTTTCTTGGCGACAGAGACTCACTCTGTCGCCCAGGCTGGAGTGCAGTGGCCTGATCTCGGCTCACAGCAACCTCCTCCTCCCAGGTTCAAGCGATTCTCCTGCCTCAGCCTCTCGAGTAGCTGGGATTACAGGCGCCCGCCACCATGCCTGGCTAATTTTTGTATTCTTAGTAGAGACGGGGTCTCACCATGTTGGCCAGGTTCGTCTCGAACTCCGGCCTCAAGTGATCCACCCGCCTCAGCCTCCCAAAGTGCTGAGATTACAGGCATGAGCCACCGCGCCCGGCCATTATTATTTTCTTAACAAAATCCTAGTGCGGTATGGGCCACCATATCCATCTTACAGAACACGAAACTGAAGCACAGTGAGGTTAAGCCACCTGGCCGGGCTCACACAGTTAGCAGATGGCAGAGGCCAGATTGGACTCCAAACTGCTCAGCATCTGTGCTCCTCTGTTCCAAGAACTTAAGGGGCCAAGGAGGCGAGCTTCTGGGGCCCCAGCCTTCAGCAGCGATCGTTGTCTCCCCTCCGCAG
Seq C2 exon
ACATCAACGAGTGTGATGAGGCCGAGGCTGCCTCCCCGCTGTGCGTCAACGCGCGTTGCCTCAACACGGATGGCTCCTTCCGCTGCATCTGCCGCCCGGGATTCGCACCCACGCACCAGCCGCACCACTGTGCGCCCGCACGGCCCCGGGCCTGAGCCCTGGCACCCGCTGGCCGCCCACCCGCGCCCGCCACTCGGGGCCCCTGCCGCGCATCCTGCAGCCCGCTTATGCGTATGTGCACGGGGCCGCCCGCCTGGACCTGGAGAAGGGACCTACGGACGCCTGGAAGCTGCGACGCCCTGCACTGCTCCCGCCTCCACCAGCGCCTCCCACTGATGTCGTGGTCCCGGGCCTGGCCCAGGGGCCCCTTTACATGCCCTCTCCCTTTTATAAAATTTTCCATTAAAAACCACCTATTTTCTATC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000090006-LTBP4:NM_003573:32
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.077 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF146701=FXa_inhibition=WD(100=67.3),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=84.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGACGGCTGCACCAAC
R:
CCCCGTGCACATACGCATAAG
Band lengths:
348-1886
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)