GgaINT1028053 @ galGal4
Intron Retention
Gene
ENSGALG00000007340 | TMPRSS5
Description
transmembrane protease, serine 5 [Source:HGNC Symbol;Acc:HGNC:14908]
Coordinates
chr24:5496259-5496823:-
Coord C1 exon
chr24:5496701-5496823
Coord A exon
chr24:5496395-5496700
Coord C2 exon
chr24:5496259-5496394
Length
306 bp
Sequences
Splice sites
5' ss Seq
GAGGTTTCC
5' ss Score
-3.32
3' ss Seq
GGTGAGGTCGGTGCTGTCAGTGT
3' ss Score
-1.97
Exon sequences
Seq C1 exon
GGCAGCACCTCAGGGGTCCACAGCCGCACCAGGGCTTGGCCAAGCCACAGGCATCAGATATGGTGACAGCGTGCAGTGAGGGCGAGGAGGAGGAGCCTGTGGTCCGCGGGGCGCCTGGAGGAG
Seq A exon
GTTTCCCCCTTCCCATTGCCCCTGCTGAACCTGGGATGCTCCTGGATAGTGAATCTCTGCTGAACTCTCTTAGCTCAGCTGCATGCTGCAATGGTTTCGCTTTGCTTTTGCATCCCACTGCGTTCCCTGGCAGCAGTGCACGACGTGGTCCTCCCTTTGCATGCGCCCTCTCAGCAAAGCTGCACTGAGAACGCTTTGAAAGCTTTACGTGCAGTTTATCATCCGCTACGAACAGATTGCTTTGGAGTTTGTTTTTCTACAGGCCCTGCGTGAAGCGCTGCGGGGAGGTGAGGTCGGTGCTGTCAG
Seq C2 exon
TGTCTTTCAGGATCCAGGCGGGTGCCTCCCTGCTGGCGGTGCGGCCGCAGGACCGGTCCCGATGGCTGCTGGCCTGCTATGAGCACTGGCAGCCCACGCTGGGCACACGGCTGTGCCGGCACCTCGGGGCGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007340:ENSGALT00000011874:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.571 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF154941=SRCR_2=PU(41.5=84.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTCAGGGGTCCACAGCC
R:
GGCTGCCAGTGCTCATAGC
Band lengths:
210-516
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]