HsaINT0169711 @ hg19
Intron Retention
Gene
ENSG00000184012 | TMPRSS2
Description
transmembrane protease, serine 2 [Source:HGNC Symbol;Acc:11876]
Coordinates
chr21:42843733-42845423:-
Coord C1 exon
chr21:42845252-42845423
Coord A exon
chr21:42843909-42845251
Coord C2 exon
chr21:42843733-42843908
Length
1343 bp
Sequences
Splice sites
5' ss Seq
AAAGTATGC
5' ss Score
5.06
3' ss Seq
GAGTCCTTCTTCTCTCCCAGACC
3' ss Score
8.31
Exon sequences
Seq C1 exon
CCTGCGGGGTCAACTTGAACTCAAGCCGCCAGAGCAGGATTGTGGGCGGCGAGAGCGCGCTCCCGGGGGCCTGGCCCTGGCAGGTCAGCCTGCACGTCCAGAACGTCCACGTGTGCGGAGGCTCCATCATCACCCCCGAGTGGATCGTGACAGCCGCCCACTGCGTGGAAAA
Seq A exon
GTATGCCAGGGGCGGCGCGGGCCGGGTGGGGGCTCAGGGCTGGCCTACAGCCACCCTGTGACCTTGAGCAGGTCTCAACCCTTGCAGCCCCGGCATCCTTGTGTTTAAATGGGGAGAGTATTGCACCTGCTTCCTAGGGCTGTGAGACATCAAGTGCGCTCATGCCAGGCAGTGCATGGCTGTATGCACTGAGTGTCCCCTGCACGCAGGGCACAGGGTGCAGGTGGAACATTCTCCACGATGTCGCCGTGACCAGCGTTCCTTCCAGCCACTGTCCTCTGAGCTCTGTCCTGCCCTTGAGCAAAGCCCCTGCCCCCTGAGGTATCCTGTCTCCGGGACGCTAGTCCCAGGAGAGGGCACACTCAGACAGGCTTCAGGCTGCCCTGCTGGAAGGTCCCTGGGGTTAAGCGTTCTTGGCCACAGCATTGCTCATGCAGAGGGTTAGGTAGGGGTGAGGCTAGCCGTGACAGTATTAGCATTTATGGACGCTACCACCCCCTCCCCTTTTCCTTAAACACATAGTGCTTTTGGTCACATGCTGCTTTGGAGGAGGCCTCACTTGGCGGATGTATTTTTCTGCCTTAGAGAGAGGCTGAACTGGGTTTGACTGTTGGCCCAGCCCTCTCTTGCTGCGTGCCCTTAGACGATTCACTCAACGTCTCTGATCCATGGCATGTACAACTATAAGATGGGCATGCCCTTCTCCTCTCGGGCTGTTATGAAGGTCAAGGAAGCAAGGGCTGTTACCCAAGGGTGCTCCCTTCTCTCCCCCTCTTCACACCCCCAGGTGCTCTGGGCCCTCTAGGAACTGGGTTTCTCTCAAGGGCTGTTACCCAAGGGTGCTCCCTTCTCTCCCCCTCTTCACACCACTGGGTGCTCTGGGCCCACTAGGAGCTGGGATTCTCTTAAGAGGGAAACTCTTGGATAAAGGAAATGGTTTGATTGATATCGGACAAGTCTGTTCATTAGTATCCATTTATTAAGCACCTACCATGTGCCAGGAAATGCTTTGGCGTACAAAGGAAAATAAGGGCCAGTCCTGCTAGAAATGGCCTTGAAACCCCAGGGAGGGATGTCGGCCCATTGTGGGTGCTGCAGATTCCTTGAAGGTGATGCAAGAGCCAGAAAGAAGGATGATGTGGGGGGCTGAGGCAGGGAGTCGGGGTTGGGGGAGTGTGGGGGAGAAGGGGAGACCGAGCACCTCTTCCACTATCTCCCTGTGTGGTTTTTGGTGAACCATCCTGCCTCTGGGTGTCTTGCCTCCAGCTTCTGACGTTGGAAGTTCATCCACTGAGAGCTCTGTGTTTATGGCTCTGAGATACTGAGTCCTTCTTCTCTCCCAG
Seq C2 exon
ACCTCTTAACAATCCATGGCATTGGACGGCATTTGCGGGGATTTTGAGACAATCTTTCATGTTCTATGGAGCCGGATACCAAGTAGAAAAAGTGATTTCTCATCCAAATTATGACTCCAAGACCAAGAACAATGACATTGCGCTGATGAAGCTGCAGAAGCCTCTGACTTTCAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000184012-TMPRSS2:NM_001135099:9
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:
PF154941=SRCR_2=PD(5.2=8.6),PF0008921=Trypsin=PU(19.2=75.9)
A:
NA
C2:
PF0008921=Trypsin=FE(25.8=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:
GCGGGGTCAACTTGAACTCAA
R:
CGTTGAAAGTCAGAGGCTTCT
Band lengths:
345-1688
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)