GgaINT0138233 @ galGal4
Intron Retention
Gene
ENSGALG00000007406 | TMPRSS4
Description
transmembrane protease, serine 4 [Source:HGNC Symbol;Acc:HGNC:11878]
Coordinates
chr24:5438099-5438415:+
Coord C1 exon
chr24:5438099-5438194
Coord A exon
chr24:5438195-5438275
Coord C2 exon
chr24:5438276-5438415
Length
81 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGC
5' ss Score
9.44
3' ss Seq
CCGCATTTTGCTGCGTGCAGGCA
3' ss Score
5.78
Exon sequences
Seq C1 exon
ACAGCACCAAGCCCATCTGCCTGCCCTACTTCGACGAGGAGCTGGAGCCGGACACCCCGCTGTGGGTGATAGGTTGGGGCTACACGCAGCAGAACG
Seq A exon
GTGAGCGGGATATCGTGGGCTCCCTGCCCTGTGGGGGCTGCTGGGGGACACCTCTGAACGGCCGCATTTTGCTGCGTGCAG
Seq C2 exon
GCAAACTGTCAGAGGCCCTGCAGCAGGCAGAAGTGAGGCTGATCAGCATGCAGAGCTGCAACCTGCAGGCGTACCATGGCAAGGTGACACAGAAGATGCTGTGCGCCGGGCTGCTCGAGGGCGGGGTGGACACCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007406:ENSGALT00000011978:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(14.3=100)
A:
NA
C2:
PF0008921=Trypsin=FE(20.6=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:
CATCTGCCTGCCCTACTTCGA
R:
TTCTGTGTCACCTTGCCATGG
Band lengths:
177-258
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]