GgaINT0138211 @ galGal4
Intron Retention
Gene
ENSGALG00000007340 | TMPRSS5
Description
transmembrane protease, serine 5 [Source:HGNC Symbol;Acc:HGNC:14908]
Coordinates
chr24:5495931-5496187:-
Coord C1 exon
chr24:5496086-5496187
Coord A exon
chr24:5495975-5496085
Coord C2 exon
chr24:5495931-5495974
Length
111 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
ACCACCGTCCCCATGCACAGGAG
3' ss Score
7.04
Exon sequences
Seq C1 exon
AGCGGTACATCAGAAGGGGGTGAAGCTGACGGACGTGAGCATGGAGGACGGGCAGGAGTTTGCCCAGGTGGGGTCCAGCCTGGAGGACGCGTGGCAGATCAG
Seq A exon
GTGAGGGTGGGCCGGGGCGGTGCTGGTGGGATTGGTGTGTGCCTTCAGCTGGGTGGCAAAGCGCCGCCTTCCCCCAGCATGCAGCTCCCTGACCACCGTCCCCATGCACAG
Seq C2 exon
GAGCAGCTGCGAGTCGGGCCGTGTTGTGGCCCTGCAGTGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007340:ENSGALT00000011874:4
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=FE(36.2=100)
A:
NA
C2:
PF154941=SRCR_2=FE(16.0=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:
AGCGGTACATCAGAAGGGGG
R:
CTGAGCACTGCAGGGCCA
Band lengths:
146-257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]