HsaINT0097602 @ hg19
Intron Retention
Gene
ENSG00000090006 | LTBP4
Description
latent transforming growth factor beta binding protein 4 [Source:HGNC Symbol;Acc:6717]
Coordinates
chr19:41114126-41114509:+
Coord C1 exon
chr19:41114126-41114275
Coord A exon
chr19:41114276-41114389
Coord C2 exon
chr19:41114390-41114509
Length
114 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TGATACCCCTTCTTTATCAGGCT
3' ss Score
6.97
Exon sequences
Seq C1 exon
AGGGTTTCCGGGAGATCTGCCCGGCTGGTCCTGGTTACCACTACTCGGCCTCCGACCTCCGCTACAACACCAGACCCCTGGGCCAGGAGCCACCCCGAGTGTCACTCAGCCAGCCTCGTACCCTGCCAGCCACCTCTCGGCCATCTGCAG
Seq A exon
GTGAGCTGGCTCTGGCAGAAGTGGGTGCCATCTTCAAGGGGCTGCCCCAGCCCCATAGTGAAAGGAGGCAAGAGAGGATTTGGGCTCCACTCGTTGATACCCCTTCTTTATCAG
Seq C2 exon
GCTTTCTGCCCACCCATCGCCTGGAGCCCCGGCCTGAACCCCGGCCCGATCCCCGGCCCGGCCCTGAGCTTCCCTTGCCCAGCATCCCTGCCTGGACTGGTCCTGAGATTCCTGAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000090006-LTBP4:NM_003573:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.549 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0068312=TB=PD(11.6=9.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTGGTCCTGGTTACCACTA
R:
TCAGGAATCTCAGGACCAGTC
Band lengths:
243-357
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)