HsaINT0169700 @ hg19
Intron Retention
Gene
ENSG00000184012 | TMPRSS2
Description
transmembrane protease, serine 2 [Source:HGNC Symbol;Acc:11876]
Coordinates
chr21:42842575-42843908:-
Coord C1 exon
chr21:42843733-42843908
Coord A exon
chr21:42842671-42843732
Coord C2 exon
chr21:42842575-42842670
Length
1062 bp
Sequences
Splice sites
5' ss Seq
ACGGTACGT
5' ss Score
11.34
3' ss Seq
GTTTTCTCTTCTTGAAACAGACC
3' ss Score
8.62
Exon sequences
Seq C1 exon
ACCTCTTAACAATCCATGGCATTGGACGGCATTTGCGGGGATTTTGAGACAATCTTTCATGTTCTATGGAGCCGGATACCAAGTAGAAAAAGTGATTTCTCATCCAAATTATGACTCCAAGACCAAGAACAATGACATTGCGCTGATGAAGCTGCAGAAGCCTCTGACTTTCAACG
Seq A exon
GTACGTGTGGCTCAGGCTTGGCAAGCAGGTTGGCAGAATCTTAAAGAGATGTTGATTGGAAATGACACTTGTGCTATGCCAAATGGAAGGGAGGCATTTGCGTTGAGCGAGGGTAGCGTGCAGCGGGTGGCCAATGGGAGAGGCTCACAGAGGCTAAGAGCACCTGCCGCATTTTGGGGGAGGCAGCAGCCACCACATCTGTTCTGTACTGTACTGAGTGGTGGTGATTCAAGCCAGGCATGGAAAAGGCTAGAACAGGGCTTTCCCACTGCAGCACCCTTGACATCTGGGTGGTTCTCTGTTGTAGGGCTCTCTTGTGCCTTGTAGGATGTTTAACAGCGTCCCCAGCCTCTACCCACTGGAGGCCAGTAGCTACCAAGCTGTGACAACCAGTGTTGCCTGCTGACATTGCCAAACATCCGCTTTGAGGCAAAGTCACTTCCAGTTGAGAACTACTGGCCTAAAATGTGTAAAGATCCTTGATTTTTAAAGATACATTCTAAAACCAAGTTGCTTAATTCAGGACAAACATGCTTTCTCTTAGCCTCTTATTCGGTCCCACTCTGGTCCATCCAAGGGTCTGGAATGTTCTAGCCCCATGTGGATACAGAAGAAGCAAAACCTCAGCCCTCCCTACAGCATGTCTGTATTCACATTGGGAAATGGTTCACATATAGAAGAGCGAATGCCTGAGCAATGGCGTGGTGCCTCTGGGGCGAAAGCTGACTCCATTGACTCCATCGGCTTTTTGGCTGTTGCCTCCTGTGTGTCTTTCCCGTCTTGATCACCTGGAGATATGTAATTTTGGAAGCAGAGCTAGCAAATAATTCCTCTTATAAGCAGAGCTAGCAAATAATTCTACTTATAAGTAGCATAACGTCTTGCCTGCCAGAAGGAGAGGTCTGGCAGGGGGAGAAAGTGAGAATGTGGGACTTGTTGGGATGCAGGGTCCTCTGGGCAGGGTGGCCAGGGTGCCAGGCCCAGCAGCCTGCATGTGGGAAGGCCAGGTGGAGACATAGGTGATACCCGCCTGGCTCACTGTGTTTTCTCTTCTTGAAACAG
Seq C2 exon
ACCTAGTGAAACCAGTGTGTCTGCCCAACCCAGGCATGATGCTGCAGCCAGAACAGCTCTGCTGGATTTCCGGGTGGGGGGCCACCGAGGAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000184012-TMPRSS2:NM_001135099:10
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=FE(25.8=100)
A:
NA
C2:
PF0008921=Trypsin=FE(14.0=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:
ACCTCTTAACAATCCATGGCA
R:
TTTCTCCTCGGTGGCCCC
Band lengths:
271-1333
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)