GgaINT0088808 @ galGal4
Intron Retention
Gene
ENSGALG00000010186 | CAPN1
Description
Calpain-1 catalytic subunit [Source:UniProtKB/Swiss-Prot;Acc:P00789]
Coordinates
chr3:29683581-29683792:-
Coord C1 exon
chr3:29683735-29683792
Coord A exon
chr3:29683646-29683734
Coord C2 exon
chr3:29683581-29683645
Length
89 bp
Sequences
Splice sites
5' ss Seq
GACGTGAGT
5' ss Score
9.22
3' ss Seq
CCCTCCTCCTTCCTCCTCAGACA
3' ss Score
11.07
Exon sequences
Seq C1 exon
GACATGGAAATCAGCGTCTTCGAGCTCAAGACGATTCTGAACAGAGTGATCGCCAGAC
Seq A exon
GTGAGTGCTGCCCTTTTCCCCTGTAGCCCAGGCCGGTTCAGCAGGTTGTGCTTTGATGCACACGATTCCCCCTCCTCCTTCCTCCTCAG
Seq C2 exon
ACAAAGATCTGAAGACGGATGGCTTCAGTCTGGACTCCTGCCGCAACATGGTCAACCTGATGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010186:ENSGALT00000016557:15
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:
PF138331=EF-hand_8=FE(31.1=100)
A:
NA
C2:
PF138331=EF-hand_8=FE(34.4=100)
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:
GACATGGAAATCAGCGTCTTCG
R:
ATCAGGTTGACCATGTTGCGG
Band lengths:
119-208
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]