HsaINT0169665 @ hg19
Intron Retention
Gene
ENSG00000137747 | TMPRSS13
Description
transmembrane protease, serine 13 [Source:HGNC Symbol;Acc:29808]
Coordinates
chr11:117774370-117774816:-
Coord C1 exon
chr11:117774674-117774816
Coord A exon
chr11:117774523-117774673
Coord C2 exon
chr11:117774370-117774522
Length
151 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
GTGCCCCCTCTCCCCTGCAGGGA
3' ss Score
11.77
Exon sequences
Seq C1 exon
ACAAGACATCCCCCTTCCTCCGGGAGGTGCAGGTCAATCTCATCGACTTCAAGAAATGCAATGACTACTTGGTCTATGACAGTTACCTTACCCCAAGGATGATGTGTGCTGGGGACCTTCGTGGGGGCAGAGACTCCTGCCAG
Seq A exon
GTGAGGGTACCTGTGGGTGGGGCTCAGGTCCCAGCACCCTGGGGATGGGGGAGGCAGGGGTGTTGGGGCTGATGTGGGAATTGGGACCCCACCCTTTCCCGCTCATGGACCACCTGTCCCATCCTGCGAATGTGCCCCCTCTCCCCTGCAG
Seq C2 exon
GGAGACAGCGGGGGGCCTCTTGTCTGTGAGCAGAACAACCGCTGGTACCTGGCAGGTGTCACCAGCTGGGGCACAGGCTGTGGCCAGAGAAACAAACCTGGTGTGTACACCAAAGTGACAGAAGTTCTTCCCTGGATTTACAGCAAGATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000137747-TMPRSS13:NM_001077263:11
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=0.035
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(20.5=100)
A:
NA
C2:
PF0008921=Trypsin=PD(19.7=88.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAAGACATCCCCCTTCCTCC
R:
ACCAGGTTTGTTTCTCTGGCC
Band lengths:
245-396
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)