HsaINT0169741 @ hg19
Intron Retention
Gene
ENSG00000166682 | TMPRSS5
Description
transmembrane protease, serine 5 [Source:HGNC Symbol;Acc:14908]
Coordinates
chr11:113567580-113568140:-
Coord C1 exon
chr11:113568005-113568140
Coord A exon
chr11:113567694-113568004
Coord C2 exon
chr11:113567580-113567693
Length
311 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACA
5' ss Score
8.88
3' ss Seq
TATTCCCTTCTTCTGCCAAGACT
3' ss Score
1.86
Exon sequences
Seq C1 exon
TATCTTTCAGAATAAACAGCGAAGACTTCTTGCTGGAAGCGCAAGTGAGGGATCAGCCACGCTGGCTCCTGGTCTGCCATGAGGGCTGGAGCCCCGCCCTGGGGCTGCAGATCTGCTGGAGCCTTGGGCATCTCAG
Seq A exon
GTAACAGGAGTTAGATGTGGGTCCTGTGAAGGGGGAGGCCTGGCTGGTGTGGGATGGGAATTGGAGACCTCTACCTGCCCGTCACTGGTCAATGTGCTCAGGAAATGTCAAGAGGTCTTTTTGGCCATCTTCTGGCCTCTGGGCACAATGGTGCCCCAGCCCATTTCTCTGTTTGGAGTATTACTGCTTTTTAACAAGCATAAACCCCAGCAGTAATCATTATCACAGTCTTGCGGTCACTATACTAGTATTATATCTCGTACATATTCCAGTTATGATTTCCTCCTGTTCTATTCCCTTCTTCTGCCAAG
Seq C2 exon
ACTCACTCACCACAAGGGAGTAAACCTCACTGACATCAAACTCAACAGTTCCCAGGAGTTTGCTCAGCTCTCTCCTAGACTGGGAGGCTTCCTGGAGGAGGCGTGGCAGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000166682-TMPRSS5:NM_030770:5
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:
PF154941=SRCR_2=PU(39.8=84.8)
A:
NA
C2:
PF154941=SRCR_2=FE(38.8=100)
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:
CAGAATAAACAGCGAAGACTTCTTGC
R:
CTGCCACGCCTCCTCCAG
Band lengths:
238-549
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)