GgaINT0138210 @ galGal4
Intron Retention
Gene
ENSGALG00000007340 | TMPRSS5
Description
transmembrane protease, serine 5 [Source:HGNC Symbol;Acc:HGNC:14908]
Coordinates
chr24:5496086-5496394:-
Coord C1 exon
chr24:5496259-5496394
Coord A exon
chr24:5496188-5496258
Coord C2 exon
chr24:5496086-5496187
Length
71 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
CGCCGCTGTTCCTTCTGCAGAGC
3' ss Score
10.92
Exon sequences
Seq C1 exon
TGTCTTTCAGGATCCAGGCGGGTGCCTCCCTGCTGGCGGTGCGGCCGCAGGACCGGTCCCGATGGCTGCTGGCCTGCTATGAGCACTGGCAGCCCACGCTGGGCACACGGCTGTGCCGGCACCTCGGGGCGCTCAG
Seq A exon
GTGGGTGCTGGTGGGGATGGGGGCGGGGCAGCCGCCCACCCCTCCCTGGGCCGCCGCTGTTCCTTCTGCAG
Seq C2 exon
AGCGGTACATCAGAAGGGGGTGAAGCTGACGGACGTGAGCATGGAGGACGGGCAGGAGTTTGCCCAGGTGGGGTCCAGCCTGGAGGACGCGTGGCAGATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007340:ENSGALT00000011874:3
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=0.000
Domain overlap (PFAM):
C1:
PF154941=SRCR_2=PU(41.5=84.8)
A:
NA
C2:
PF154941=SRCR_2=FE(36.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTCTTTCAGGATCCAGGCGG
R:
CTCACGTCCGTCAGCTTCAC
Band lengths:
175-246
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]