GgaINT0138226 @ galGal4
Intron Retention
Gene
ENSGALG00000007406 | TMPRSS4
Description
transmembrane protease, serine 4 [Source:HGNC Symbol;Acc:HGNC:11878]
Coordinates
chr24:5435933-5436314:+
Coord C1 exon
chr24:5435933-5436046
Coord A exon
chr24:5436047-5436161
Coord C2 exon
chr24:5436162-5436314
Length
115 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
AGCTCCCCGCTTCCCCCCAGTCA
3' ss Score
6.22
Exon sequences
Seq C1 exon
AACCCGGCACGAGACACAAAGCCTCGGGGGCACAGCACTCCTGGAAGCGCATCGGCATCCCCATCCTGGTGACCGTGCTCATCCTCGCCTGCCTGGCTGCGGTTGGGCTCTTGG
Seq A exon
GTGAGGCTCCTGCTCTGTTCTGAGCCTGCTCCTGCCCGGTGCTCGGCTGGGAGTGGCTGTACCACCACCATCCTGAGCCCCCCGGCCCCAAGCTGAGCTCCCCGCTTCCCCCCAG
Seq C2 exon
TCAAGGTTTATCTGGAGCACCACTACTTCATCTGCAAGCAGCCCCTGAAGCTGGTGCCGCTGGTGCAGGTTTGCAACGGGGAGGCGGACTGCCTGCACGGCGAGGATGAGACCAGCTGTCCCCAGCAGGTCCCTGAGGGGCCACAGGCTGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007406:ENSGALT00000011978:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.256 A=NA C2=0.250
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=65.4)
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:
CACGAGACACAAAGCCTCGG
R:
CTCAGGGACCTGCTGGGG
Band lengths:
244-359
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]