GgaINT0138723 @ galGal4
Intron Retention
Gene
ENSGALG00000021273 | TMPRSS13
Description
transmembrane protease, serine 13 [Source:HGNC Symbol;Acc:HGNC:29808]
Coordinates
chr24:5416112-5416326:-
Coord C1 exon
chr24:5416234-5416326
Coord A exon
chr24:5416156-5416233
Coord C2 exon
chr24:5416112-5416155
Length
78 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGCA
5' ss Score
6.37
3' ss Seq
CCCCCTCTTCTCTCCCACAGCTC
3' ss Score
13.01
Exon sequences
Seq C1 exon
CGCGTCGCAGACAGAATACGTCCCCCTGCACGTCTCTGGCAAGAGCCTCACGGTGGCGGATGAGCGGGACACCATCCAGCAGAGCCTCAACAG
Seq A exon
GTAGCAGGCAGCTCCCTGCCAGCCCGGAGCTGGGGGTCAGGCTGGGGCTGACGTGTGTCCCCCTCTTCTCTCCCACAG
Seq C2 exon
CTCCCAGTGTCTGACGGGCAAATTTGTCTCCCTGCGGTGTACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021273:ENSGALT00000011876:5
Average complexity
IR
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=FE(34.1=100)
A:
NA
C2:
PF154941=SRCR_2=FE(16.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGACAGAATACGTCCCCCT
R:
AGGGAGACAAATTTGCCCGTC
Band lengths:
120-198
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]