HsaINT0097604 @ hg19
Intron Retention
Gene
ENSG00000090006 | LTBP4
Description
latent transforming growth factor beta binding protein 4 [Source:HGNC Symbol;Acc:6717]
Coordinates
chr19:41115436-41115777:+
Coord C1 exon
chr19:41115436-41115567
Coord A exon
chr19:41115568-41115651
Coord C2 exon
chr19:41115652-41115777
Length
84 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGC
5' ss Score
7.43
3' ss Seq
AGCCCCCTCCGTGTCCTCAGATG
3' ss Score
9.26
Exon sequences
Seq C1 exon
GTCCCTCCTCCGGCATGTGTCAGCGCAACCCCCAGGTCTGCGGCCCAGGACGCTGCATTTCCCGGCCCAGCGGCTACACCTGCGCTTGCGACTCTGGCTTCCGGCTCAGCCCCCAGGGCACCCGATGCATTG
Seq A exon
GTGAGCAAGACGGAGGGCGCGGAAGGAGGCGGGGCGGGGGGCTTTGCCTGGTCACCTTGTCACCAGCCCCCTCCGTGTCCTCAG
Seq C2 exon
ATGTGGACGAATGTCGCCGCGTGCCCCCGCCCTGTGCTCCCGGGCGCTGCGAGAACTCACCAGGCAGCTTCCGCTGCGTGTGCGGCCCGGGCTTCCGAGCCGGCCCACGGGCTGCGGAATGCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000090006-LTBP4:NM_003573:13
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.089 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF146701=FXa_inhibition=WD(100=82.2),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=95.3),PF0764510=EGF_CA=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATGTGTCAGCGCAACCCC
R:
CTGGTGAGTTCTCGCAGCG
Band lengths:
182-266
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)