DreINT0005750 @ danRer10
Intron Retention
Gene
ENSDARG00000055338 | CAPN1 (2 of 2)
Description
calpain 1, (mu/I) large subunit [Source:HGNC Symbol;Acc:HGNC:1476]
Coordinates
chr21:27445623-27445800:-
Coord C1 exon
chr21:27445742-27445800
Coord A exon
chr21:27445650-27445741
Coord C2 exon
chr21:27445623-27445649
Length
92 bp
Sequences
Splice sites
5' ss Seq
CAGGTTGGT
5' ss Score
8.08
3' ss Seq
GTTTTCTTCTCTTTCGGCAGTGG
3' ss Score
7.96
Exon sequences
Seq C1 exon
AAACGTTTAAAACATTGGACGCTGATGAAGATGGACTTGTATCCTTCAGCTTTGCCCAG
Seq A exon
GTTGGTCTTTAATGCTGACAACGAAACTTTCAAATAGCAAATGCTTGCCTTGGCACATTTTATTAGCCTTTTGTTTTCTTCTCTTTCGGCAG
Seq C2 exon
TGGATCACCCTCACTATGTTCACATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055338:ENSDART00000077657:20
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:
PF134991=EF-hand_7=PD(18.2=80.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGTTTAAAACATTGGACGCTGA
R:
GTGAACATAGTGAGGGTGATCCA
Band lengths:
80-172
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]