GgaINT0138228 @ galGal4
Intron Retention
Gene
ENSGALG00000007406 | TMPRSS4
Description
transmembrane protease, serine 4 [Source:HGNC Symbol;Acc:HGNC:11878]
Coordinates
chr24:5436410-5437068:+
Coord C1 exon
chr24:5436410-5436539
Coord A exon
chr24:5436540-5436966
Coord C2 exon
chr24:5436967-5437068
Length
427 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGG
5' ss Score
10.88
3' ss Seq
CTCGTGTCCATCTCTTCCAGCAC
3' ss Score
8.84
Exon sequences
Seq C1 exon
CTCGCCTTTCCAAGGACAGATCCATCCTGCAGGTGCTGAACAGGAACACTGGAGCCTGGTCCTGCGTCTGTTCCGACTACTTCAGCCCAGCGCTGGCGAAAGCAGCCTGTGAGGAAATGGGCTACAGCAG
Seq A exon
GTACGGGGCTGCTTTCCCCACACCTCACTCACTTCGATCTATCGCTCTCCCCTAAAAGCCTCTCTGAGTGGGCCGTTGTTTACTTATAGAGCACTCAGAGTTCTGCACTAATGGCTTCAGCCCATCCCCAGCACGCAGAGCACTCAGTGTGCCCACGGAGCCTGGCAGCTCCCCAGGCAAGCCCAGTGCTGTGTCCCTGCTGTGCCCAACTGCCAGACCTCTTTCCCTGTCCCCCCACCCTTTCTCCTCTTTCTTGGGGGGTCCCATCCCCTTCCTAAGCTCTTGCTCCATCTCAGCTCGCTATTGGAGCTATGGGTGAACATTTGGGACCTGCTCCTAAATCTTTACAGCGGGATGACACCTTAGTCTCAGTGCCAGCCCAAATCCAACCCCCGGCCGTGCTCTGACTCGTGTCCATCTCTTCCAG
Seq C2 exon
CACCCCAACTTTCCACGCAGTGGATGCGGGTGCAGGACAGCCCCTGCCTCCCCGTGAGCTGGTGCTGAGCAACGGCCGCCTGCAGCTGCCAGAGCCAGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007406:ENSGALT00000011978:5
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=0.029
Domain overlap (PFAM):
C1:
PF154941=SRCR_2=PU(41.9=88.6)
A:
NA
C2:
PF154941=SRCR_2=FE(36.6=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:
GACAGATCCATCCTGCAGGTG
R:
CCGTTGCTCAGCACCAGC
Band lengths:
191-618
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]