DreINT0041169 @ danRer10
Intron Retention
Gene
ENSDARG00000034211 | capn2l
Description
calpain 2, (m/II) large subunit, like [Source:ZFIN;Acc:ZDB-GENE-050417-341]
Coordinates
chr22:26639582-26639758:+
Coord C1 exon
chr22:26639582-26639618
Coord A exon
chr22:26639619-26639692
Coord C2 exon
chr22:26639693-26639758
Length
74 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAT
5' ss Score
8.39
3' ss Seq
TTTGATTTTTATTCTTGTAGATT
3' ss Score
8.26
Exon sequences
Seq C1 exon
AGAGCTTGATGATCCTGTCGAGTCCAAGGTCGCAGAG
Seq A exon
GTAAATGTTTTCAACATGAATATGATACTGTATTATTACACAAAAATGCTTTATTTTGATTTTTATTCTTGTAG
Seq C2 exon
ATTGAGATAAAAGAGGGAGATATCGATAGCCGGTTCAGGAATCTGTTCAAGCAGCTTGCTGGAGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000034211:ENSDART00000083351:13
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:
PF0106717=Calpain_III=PD(0.1=0.0)
A:
NA
C2:
PF138331=EF-hand_8=PU(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:
GAGCTTGATGATCCTGTCGAGT
R:
GCAAGCTGCTTGAACAGATTCC
Band lengths:
95-169
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]