GgaINT0138234 @ galGal4
Intron Retention
Gene
ENSGALG00000007406 | TMPRSS4
Description
transmembrane protease, serine 4 [Source:HGNC Symbol;Acc:HGNC:11878]
Coordinates
chr24:5438276-5438712:+
Coord C1 exon
chr24:5438276-5438415
Coord A exon
chr24:5438416-5438551
Coord C2 exon
chr24:5438552-5438712
Length
136 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
CCAGCGTTGGTCTTTGGCAGGGG
3' ss Score
4.9
Exon sequences
Seq C1 exon
GCAAACTGTCAGAGGCCCTGCAGCAGGCAGAAGTGAGGCTGATCAGCATGCAGAGCTGCAACCTGCAGGCGTACCATGGCAAGGTGACACAGAAGATGCTGTGCGCCGGGCTGCTCGAGGGCGGGGTGGACACCTGCCAG
Seq A exon
GTAAGGGGCAGCACCGGGTGTCCCACCACGCTGGGGGTGCCCGCTCCTGAACTGGGACAGGTTGTTCTATGGAACGGCCCCGTGGAGGGGATGCGTGCCCGGCGCGATGCTCACAGCCAGCGTTGGTCTTTGGCAG
Seq C2 exon
GGGGACAGCGGAGGGCCTCTGCTGTATGCAAACAGGCACTGGCAGGTGGTGGGCATCGTCAGCTGGGGCTTCGGCTGCGGCACCCCCAGCACACCCGGTGTCTACACCAGCGTCCGAGCGTACCTCGACTGGATCTACGCCGTCCGCAGGGTCAGTGCCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007406:ENSGALT00000011978:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(20.6=100)
A:
NA
C2:
PF0008921=Trypsin=PD(19.7=83.0)
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:
AGGCAGAAGTGAGGCTGATCA
R:
AGATCCAGTCGAGGTACGCTC
Band lengths:
252-388
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]