DreINT0041161 @ danRer10
Intron Retention
Gene
ENSDARG00000055592 | capn2b
Description
calpain 2, (m/II) large subunit b [Source:ZFIN;Acc:ZDB-GENE-050522-84]
Coordinates
chr22:26321616-26321851:-
Coord C1 exon
chr22:26321768-26321851
Coord A exon
chr22:26321702-26321767
Coord C2 exon
chr22:26321616-26321701
Length
66 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGA
5' ss Score
8.55
3' ss Seq
TTAAAGCTTTTTTGTCTCAGGTG
3' ss Score
6.71
Exon sequences
Seq C1 exon
ATCACAAGTGCTGCTGATTCAGAAGCCATCACTCGTCAGAAGCTGGTCAAAGGCCACGCCTACTCACTCACAGGGGCAACAGAG
Seq A exon
GTATGATTATTATTATTTTAAATAACATAATTAAAATATTTAGTTTTTAAAGCTTTTTTGTCTCAG
Seq C2 exon
GTGAACTATCGTGGTCGCAAGGAAAAGCTGGTTCGTATGCGCAACCCTTGGGGACAGGTGGAGTGGACCGGAGCCTGGAGCGACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055592:ENSDART00000077958:6
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=0.034
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(9.1=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(9.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCACAAGTGCTGCTGATTCAGA
R:
TTGTCGCTCCAGGCTCCG
Band lengths:
169-235
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]