HsaINT0169740 @ hg19
Intron Retention
Gene
ENSG00000166682 | TMPRSS5
Description
transmembrane protease, serine 5 [Source:HGNC Symbol;Acc:14908]
Coordinates
chr11:113568005-113569749:-
Coord C1 exon
chr11:113569627-113569749
Coord A exon
chr11:113568141-113569626
Coord C2 exon
chr11:113568005-113568140
Length
1486 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGC
5' ss Score
8.07
3' ss Seq
TTTTCATGCTGTGATTTCAGTAT
3' ss Score
5.16
Exon sequences
Seq C1 exon
TGCTGTATCTGTGTCCTGCTGCCTCTCAGCCCATTTCCGGGACCTTGCAGGATGAGGAGATAACTTTGAGCTGCTCAGAGGCCAGCGCTGAGGAAGCTCTGCTCCCTGCACTTCCCAAAACAG
Seq A exon
GTGGGCTGCACCCCTAAGGCTACGGGCCTCCCTCCCCAGCAGGGACCTGTCACAGCTGAGGGCAAGAGAACCGACACTGAAGGGCCATCTGTTCACTGCCAACCATATGTGTTTCCCTCCTCTAGTGTGAGGGCAGTGACAAGGTGTCACCTTGCAGTGATCTCTGATTTGGGGCTTTCAGCACTGCCTGAGGACTGTCCTGATCTCTAGCTGGGGCAAGGTCCGGAGACCAGGCTGGCAGGAGGGATGGAAACTTGCCATTTGGGGCAGAGTGAGCCAGGGACATGGGGGAGGAGGGATCAGGTGTGTGTGTGTGGGAGCCAGTGTGTGACCAGCAGGGCCACCTAGGGACCTGGGAACATCAGCCCACCTCATCCCCACTCTCCCTCTCCTGATTGTCCCCTCCCCTCCAGGTAAGAGTTGGGGATCAGAAGGTACAATGCTGTCCAGAGGCTGGGGCTTAGAATAACCTCATTAGAATAAGGTTGGAGTCTGTCTTTGACTGTGTGACTTTGGGCACATTACTTCTTGTTGCTTCTGTTTCCTTCTCCATAAAATGGAAATATAAATATTTACTGCACAAATTGTTTAAGGATAAAACAAACTAATCTAAGAAAAGATATCAGCACAGAACTTGTGTAGTAGTCTGTTTGGTTTGCCATGACTAAGTACCACAGACCGGGTGGTTTAAACCACATTTATTTTCTCACCGTTCTGGTGGCTAGAAGTCCAAGATCAAGGTGCTGTGGAATTCGGTTTCAGGAGAGAGCTCTTTTCCTGGATTGTAGATGGCTGTCTTCTGCCTGTGTACTCCCCGGGCCTTTCCTCTGCTCTTGAGGAGAGAGGGAGCTCTCTGGTGTCTCTTCCTCTTCTTATAAGGACACTGGCTCTATTGGATCAGGGCGTCACCCTCGTGACCTCATTTAACCTTAATCACCTTCTTAAAGGCCCTGTCTCCAAATACAGTCACATTGAGGGTTGGGGCTTTAACATATGAATTTGTGTGTGTGTGTTTGGGGGCGGGGACATGAGTCAGTCCATAATAGCCTGGAAAAAGCATACACTCAACAACTGGTAATTATTATTATCACAAGATTTGAAATCAGAAGACCTGGATCTAAGTCCTGGATCCATCATTTCCTGACACTGTGATCTTGGGGAAGTTGCTTAAACTCCATGCCTTAGTTCTCCTTCTGCAGAATGGAGAGGATGGCAGTACTCATTGCACAGGGCTGCTGTGACAATGAATGGTAGACCACGCTTAAAAACACATGGTTAAAATAGAAAACTGAAATGCTCTACCAAAAGGGGTGATACTGCTCTTGGGACTGGTCTCACTCTCCGGGGAGCAGGGAACTTGGCACTGGGTGATCCAGATGCTGTCATTAAGGCCTCTTCAAGTACTACAGAATCCTGGGTCCAGCTCTTCCTGTCCCACCCTACCACCACCATCCTCTCCCATGTGGTTTTCATGCTGTGATTTCAG
Seq C2 exon
TATCTTTCAGAATAAACAGCGAAGACTTCTTGCTGGAAGCGCAAGTGAGGGATCAGCCACGCTGGCTCCTGGTCTGCCATGAGGGCTGGAGCCCCGCCCTGGGGCTGCAGATCTGCTGGAGCCTTGGGCATCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000166682-TMPRSS5:NM_030770:4
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:
NO
A:
NA
C2:
PF154941=SRCR_2=PU(39.8=84.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTATCTGTGTCCTGCTGCCT
R:
CCAAGGCTCCAGCAGATCTG
Band lengths:
247-1733
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)