HsaINT0169733 @ hg19
Intron Retention
Gene
ENSG00000137648 | TMPRSS4
Description
transmembrane protease, serine 4 [Source:HGNC Symbol;Acc:11878]
Coordinates
chr11:117985544-117985995:+
Coord C1 exon
chr11:117985544-117985642
Coord A exon
chr11:117985643-117985852
Coord C2 exon
chr11:117985853-117985995
Length
210 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGT
5' ss Score
11.08
3' ss Seq
GAGTGTTTTTACCCTCCCAGGGA
3' ss Score
6.99
Exon sequences
Seq C1 exon
GCACAGTCAGGCCCATCTGTCTGCCCTTCTTTGATGAGGAGCTCACTCCAGCCACCCCACTCTGGATCATTGGATGGGGCTTTACGAAGCAGAATGGAG
Seq A exon
GTAAGTCCTGGGTGCAGGACCACAGGGCAGGAGATGCCCTTGTATGAGGGAGCAGCTTCCAGAAGTAATGGGAAGGAGGACCACCCTTCAGAGAAACCCATCCTGGAGGACCAAGCACCAAGGCGCCAGGCAGAAAGCAAAGTGGTTTGGCAATCCAGGGCTGGGGGATAGAAGGCAAGGATGGGAATGTGAGTGTTTTTACCCTCCCAG
Seq C2 exon
GGAAGATGTCTGACATACTGCTGCAGGCGTCAGTCCAGGTCATTGACAGCACACGGTGCAATGCAGACGATGCGTACCAGGGGGAAGTCACCGAGAAGATGATGTGTGCAGGCATCCCGGAAGGGGGTGTGGACACCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000137648-TMPRSS4:NM_001173552:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PD(24.2=94.1)
A:
NA
C2:
PF0008921=Trypsin=FE(20.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACAGTCAGGCCCATCTGTCT
R:
TGTCCACACCCCCTTCCG
Band lengths:
233-443
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
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)