GgaINT0138725 @ galGal4
Intron Retention
Gene
ENSGALG00000021273 | TMPRSS13
Description
transmembrane protease, serine 13 [Source:HGNC Symbol;Acc:HGNC:29808]
Coordinates
chr24:5415439-5415851:-
Coord C1 exon
chr24:5415692-5415851
Coord A exon
chr24:5415612-5415691
Coord C2 exon
chr24:5415439-5415611
Length
80 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGT
5' ss Score
7.83
3' ss Seq
CTGCCTCCCCCCGTGCCCAGGAA
3' ss Score
10.34
Exon sequences
Seq C1 exon
CCTGTGGGCAGAGGATTTCGGGCCGAATCATCGGAGGGAAGGAAACCTCGGTGAGCAAATGGCCCTGGCAGGTCAGCGTGCAGTACGGGCCCGTCCACATCTGTGGTGGTACCATCATCGATGCGCAGTGGGTGCTCACCGCCGCTCACTGCTTCTTCAT
Seq A exon
GTGAGTGCTGCTCTGCAGCTCACAGCCGTGGCGCTGGGCATGGCTGTGTGTCTCACCCCACTGCCTCCCCCCGTGCCCAG
Seq C2 exon
GAACAGCATGAAGATCCTCGACGACTGGAAGGTGTACGGCGGGGTGTCGGACCTCAAGCAGCCCATGGAGGGCATCCCAGTCTCCCAGGTCATCATCAACTCCAACTACAGTGATGACCACGACGACTATGACATTGCTCTCATGAAGCTCTCCCGGCCGCTGACGCTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021273:ENSGALT00000011876:7
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=PD(5.5=9.3),PF0008921=Trypsin=PU(19.2=81.5)
A:
NA
C2:
PF0008921=Trypsin=FE(25.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGATTTCGGGCCGAATCATC
R:
CCTTCCAGTCGTCGAGGATCT
Band lengths:
181-261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]