HsaINT0169735 @ hg19
Intron Retention
Gene
ENSG00000166682 | TMPRSS5
Description
transmembrane protease, serine 5 [Source:HGNC Symbol;Acc:14908]
Coordinates
chr11:113560953-113561661:-
Coord C1 exon
chr11:113561563-113561661
Coord A exon
chr11:113561096-113561562
Coord C2 exon
chr11:113560953-113561095
Length
467 bp
Sequences
Splice sites
5' ss Seq
ATAGTGAGT
5' ss Score
6.97
3' ss Seq
TTTCTCGGTGTCTCTCATAGCTT
3' ss Score
9.12
Exon sequences
Seq C1 exon
ACACTGTGGGCGCTGTGTGCCTGCCGGCCAAGGAACAGCATTTTCCGAAGGGCTCGCGGTGCTGGGTGTCTGGCTGGGGCCACACCCACCCTAGCCATA
Seq A exon
GTGAGTCAGCTCCCTGGGCCCTCGGTGCAGGGGCGGGTGTGGGAGGCATTCTTCCCCAGGGTGAGGCAAGGCCACATCCCCTGGCCACATGACAGTGCCAGCCCTGTTTTTCCCTGGCATCACCCTTGGTCAGGCCTAGGGTCTCCAGTCTCCCCTGCTTGGGCCTTTCTGGGGAGAACATCTACTGCAAGTTTTCCCTAAACCCAGACCCTTTTACTCCCCCTCCCCTTGTCCCAGGAGCGCCATGGTCTCACATTTGGTGTATGTGTGAGTCCTCCTGCTCTTCCCACTCCCAGCCCCCAAGTCCGATAGCCTACTGCTTCCTTGCTCAGCGTCCACAGCTCCCACCCTGGGCTCGCCTCTTTGGGTCTCCCTGTCTCTGGGACTTCGAATTACCTCCCCTCTTGCTGCTCTGCCTGCCTGGGCCTTGCTTTGTGCCCTGCAGTTTTTCTCGGTGTCTCTCATAG
Seq C2 exon
CTTACAGCTCGGATATGCTCCAGGACACGGTGGTGCCCTTGTTCAGCACTCAGCTCTGCAACAGCTCTTGCGTGTACAGCGGAGCCCTCACCCCCCGCATGCTTTGCGCTGGCTACCTGGACGGAAGGGCTGATGCATGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000166682-TMPRSS5:NM_030770:10
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(14.3=100)
A:
NA
C2:
PF0008921=Trypsin=FE(20.3=100)
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:
CACTGTGGGCGCTGTGTG
R:
CTGGCATGCATCAGCCCTTC
Band lengths:
241-708
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)