HsaINT0169744 @ hg19
Intron Retention
Gene
ENSG00000166682 | TMPRSS5
Description
transmembrane protease, serine 5 [Source:HGNC Symbol;Acc:14908]
Coordinates
chr11:113563793-113565362:-
Coord C1 exon
chr11:113565200-113565362
Coord A exon
chr11:113563972-113565199
Coord C2 exon
chr11:113563793-113563971
Length
1228 bp
Sequences
Splice sites
5' ss Seq
CAGGCAAGT
5' ss Score
3.1
3' ss Seq
AGCATGGCCCCTGTGTGCAGTTT
3' ss Score
4.41
Exon sequences
Seq C1 exon
AGTGTGGAGCGAGGCCCCTGGCTTCCCGGATAGTTGGTGGGCAGTCTGTGGCTCCTGGGCGCTGGCCGTGGCAGGCCAGCGTGGCCCTGGGCTTCCGGCACACGTGTGGGGGCTCTGTGCTAGCGCCACGCTGGGTGGTGACTGCTGCACATTGTATGCACAG
Seq A exon
GCAAGTCTCTGTGGCTGCTGAGGACAGAGAGCCTCAGTTGCCCTTTCTGTTCGGCTGTTGGTATGTCCTGTATCAAATGTTCGTGTCCAACTGTCTCCAGCTTTTTGCTCCAAAAGGGTAAGACTGGTGTTTGTGAAGTTCTCTCATTCAGTATCAAGAACAGATCTGCACAAATAACAGTAATAATATGAAGATTTGTTCTTTATATTCATCAGTTTTTTTTTTTTTTTTTTGAGACAGAGTCTCACTTTGTTGCCCAGGCTGGAGTGCAGTGGCGCAATCTTGGCTCACTGCAACCTTCACCTCCTGGGTTCAAGCGATTCTTGTGCCTCAGCTGGGCACCACTATGTTCAGCTAATTTTTTGTATTTTTAGTAGAGATGGGGTTTCGCCATGTTGGCCTGGCTGGTCTCGAACTCCTGACCTCAGGTGATCTGCCTGCCTCAGCCTCCCAAAGTGCTGGGATAACAGGCGTGAGCCACCGTGCCTGGCCTCATTAGCTTTTAAGTGTTAAAAATACTTTCACATTCACAGTATCCTGTGTTTCTTCAGGCTTATCTTTGGTTCAATCATTTTCCATGTAATTATTTGGTTAATATGTTTCTTCCCCTTTAGATGGGAAGCTCTGCAGGAGCAGGGACTCTCAGTCTTATTTACCACTAAATCTCTTTGTAGATTTATCCACTGCTGTGTCCCCAGGGTCTAGAACAGTCCCTGGAATATAGTAGGTGCTTAATAAATATGACTTGGAGGAATGAATGAATGATGAGTGAATGAGCTCTTTGATCTTCTCTTGGTGCCGGACAGGGCAGAGAGTGTAATCCCCATTTTACCGAGGCTGAGAGGGAGAAGTGCCTCTCCCATGATCACACACAGTAAGTTGAGAGATGGGACCAGGGGAAGTTTTTCCAACACAAGGCCCTCTATGTGTTTGTTATAAAACTTGGAGGGAAGTTATGCAGGAAAGAGGGAGTGGTGGTTGCAGATGACCCATAGTCTTCTCTATCCATCAGTCCTGCAGCATTTATTAAGCACCTACTGCATGCCCAGTGTCTTGCCGGCTGCTGGGGTGATACTAAGAGGCATAGTCTGTGGGGCCTGGGAGCTCACCGCCTGCTGACGGCCCCCCCACCAATGGCTGCTCTGGCCAGCTTCCTCCACCTGCTACCTTGCTTAGGAACACCTCTTCTGCCCCTTCCTTCCCCGCTCAGCATGGCCCCTGTGTGCAG
Seq C2 exon
TTTCAGGCTGGCCCGCCTGTCCAGCTGGCGGGTTCATGCGGGGCTGGTCAGCCACAGTGCCGTCAGGCCCCACCAAGGGGCTCTGGTGGAGAGGATTATCCCACACCCCCTCTACAGTGCCCAGAATCATGACTACGACGTCGCCCTCCTGAGGCTCCAGACCGCTCTCAACTTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000166682-TMPRSS5:NM_030770:8
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(5.1=9.1),PF0008921=Trypsin=PU(19.0=80.0)
A:
NA
C2:
PF154941=SRCR_2=PD(9.3=13.1),PF0008921=Trypsin=PU(30.6=91.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCTGGCTTCCCGGATAGTT
R:
TGAGAAGTTGAGAGCGGTCTG
Band lengths:
326-1554
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)