DreINT0041148 @ danRer10
Intron Retention
Gene
ENSDARG00000055592 | capn2b
Description
calpain 2, (m/II) large subunit b [Source:ZFIN;Acc:ZDB-GENE-050522-84]
Coordinates
chr22:26314474-26314813:-
Coord C1 exon
chr22:26314602-26314813
Coord A exon
chr22:26314511-26314601
Coord C2 exon
chr22:26314474-26314510
Length
91 bp
Sequences
Splice sites
5' ss Seq
ACAGTAACG
5' ss Score
-0.59
3' ss Seq
GATTTAATGTTTCTTACTAGACA
3' ss Score
6.78
Exon sequences
Seq C1 exon
TTTCACGGTCAGCGGGAAGTGCACCTGGATAAAAACTTCTTCCTGACGCACGGACAGAAAGCTCGCTCTGAGACTTTCATTAACCTCAGGGAGGTCTGCACGCGCTTCCATCTGCCTCCTGGAGAGTACCTCATCGTACCATCTACCTTTGAAGCCAACAAGGACGGAGACTTCTGCCTGCGTGTCTTCTCTGAAAGCCAAAGTGAAACACA
Seq A exon
GTAACGTGCCACATTTGTGTTCTTGACTATATGCCATATTTGAAATATGAATTCAATTTATTTGACTGGATGATTTAATGTTTCTTACTAG
Seq C2 exon
ACAATGCGATGACCCTGTGGATGCTGAATTACCTGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055592:ENSDART00000077958:12
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=0.897
Domain overlap (PFAM):
C1:
PF0106717=Calpain_III=FE(45.5=100)
A:
NA
C2:
PF0106717=Calpain_III=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGACAGAAAGCTCGCTCTG
R:
TCCACAGGGTCATCGCATTGT
Band lengths:
183-274
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]