DreINT0041113 @ danRer10
Intron Retention
Gene
ENSDARG00000052748 | capn1b
Description
calpain 1, (mu/I) large subunit b [Source:ZFIN;Acc:ZDB-GENE-060503-491]
Coordinates
chr22:26284280-26284478:-
Coord C1 exon
chr22:26284413-26284478
Coord A exon
chr22:26284338-26284412
Coord C2 exon
chr22:26284280-26284337
Length
75 bp
Sequences
Splice sites
5' ss Seq
GAGGTGTGT
5' ss Score
6.14
3' ss Seq
AAGTTCATCTAAACTTGTAGGAC
3' ss Score
4.84
Exon sequences
Seq C1 exon
GAGGCAGTCTCAGAGGAGAACATTGATGCCTCGTTTAAAAAGATGTTTGCTCAGCTGTCTGGAGAG
Seq A exon
GTGTGTTTGTATCTGTGTGATATTGTTAATAACATTGTGAACTGCGTTATATTAAAAGTTCATCTAAACTTGTAG
Seq C2 exon
GACATGGAGATTTCAGTTCACGAGCTCCGGACCATTCTGAACCGAGTGATGACAAAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000052748:ENSDART00000105099:13
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:
PF138331=EF-hand_8=PU(0.1=0.0)
A:
NA
C2:
PF138331=EF-hand_8=FE(31.1=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:
TCAGAGGAGAACATTGATGCCT
R:
TGTCATCACTCGGTTCAGAATGG
Band lengths:
111-186
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]