DreINT0041150 @ danRer10
Intron Retention
Gene
ENSDARG00000055592 | capn2b
Description
calpain 2, (m/II) large subunit b [Source:ZFIN;Acc:ZDB-GENE-050522-84]
Coordinates
chr22:26313115-26313318:-
Coord C1 exon
chr22:26313253-26313318
Coord A exon
chr22:26313173-26313252
Coord C2 exon
chr22:26313115-26313172
Length
80 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
3' ss Seq
CATACTGTACCTCTCTCTAGGAC
3' ss Score
10.41
Exon sequences
Seq C1 exon
GAGACTGTCTCAGATGATCAAGTTGATTCAACGTTTAGGGGGATGTTTGTAAAACTTGCCGGACCT
Seq A exon
GTAAGTGAAGACCATTTATACCGCAGTACAAATGTATATTTTCTGAGAGCAGATCAAAAGCATACTGTACCTCTCTCTAG
Seq C2 exon
GACATGGAAATCTCACCCCTGGAGCTCATGACCATCTTTAACAAAGTCATTGCAAAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055592:ENSDART00000077958:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.136 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF138331=EF-hand_8=PU(0.1=0.0)
A:
NA
C2:
PF138331=EF-hand_8=FE(31.7=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:
AGACTGTCTCAGATGATCAAGTTGA
R:
TGCAATGACTTTGTTAAAGATGGTCA
Band lengths:
119-199
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]