GgaINT0088812 @ galGal4
Intron Retention
Gene
ENSGALG00000010186 | CAPN1
Description
Calpain-1 catalytic subunit [Source:UniProtKB/Swiss-Prot;Acc:P00789]
Coordinates
chr3:29681899-29682147:-
Coord C1 exon
chr3:29682031-29682147
Coord A exon
chr3:29681958-29682030
Coord C2 exon
chr3:29681899-29681957
Length
73 bp
Sequences
Splice sites
5' ss Seq
TCAGTGAGT
5' ss Score
7.68
3' ss Seq
ATTGCCATTGTGCCCTCCAGGGT
3' ss Score
7.46
Exon sequences
Seq C1 exon
GTTTCAAGCTGAATAACAAGCTGCATCAGGTGGTGGTTGCCCGTTACGCAGATGCTGAGACGGGCGTGGACTTCGACAACTTTGTCTGCTGCCTGGTGAAGCTGGAGACAATGTTCA
Seq A exon
GTGAGTGCTGGACCAGGCTGGGGAGGGCAGGGACAGAGGGCCGTGTTGCTCACATTGCCATTGTGCCCTCCAG
Seq C2 exon
GGTTCTTCCACAGCATGGATCGTGATGGCACTGGCACCGCTGTCATGAATCTCGCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010186:ENSGALT00000016557:19
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:
NO
A:
NA
C2:
NO
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:
GCTGAATAACAAGCTGCATCAGG
R:
TCAGCGAGATTCATGACAGCG
Band lengths:
168-241
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]