DreINT0041111 @ danRer10
Intron Retention
Gene
ENSDARG00000052748 | capn1b
Description
calpain 1, (mu/I) large subunit b [Source:ZFIN;Acc:ZDB-GENE-060503-491]
Coordinates
chr22:26287523-26287908:-
Coord C1 exon
chr22:26287697-26287908
Coord A exon
chr22:26287563-26287696
Coord C2 exon
chr22:26287523-26287562
Length
134 bp
Sequences
Splice sites
5' ss Seq
TCAGTAAGT
5' ss Score
9.14
3' ss Seq
GCTTTTTCTTTTATTTTTAGAGA
3' ss Score
9.25
Exon sequences
Seq C1 exon
TTTCTTGGCTCCCAGAATGTTCACCTGAAGAAGGATTTTTTCTTGCGTCACTCGTCCTGTGCACGCTCCGAGACCTTTATTAATCTGCGAGAGGTGAGCACGCGACTGAGGCTGCCACCGGGCGAGTATCTCATTGTCCCTTCCACTTTTGAGCCTGGAAAAGAGGCTGACTTCGTCCTGCGAGTATTCACTGAGAAACAGTCAGAAACTCA
Seq A exon
GTAAGTGACTAAACGATTAAAACTAAAATAACAATAGTATTATAGATAAAATATTTTTAAAAATGACTACCATGTGGGTTTTGTATTGTGCAGCCTTATTTTACGACATATTTTGCTTTTTCTTTTATTTTTAG
Seq C2 exon
AGAAATGGATGATGAAATTTCATTTAACCTGGAAGATGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000052748:ENSDART00000105099:11
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=0.250
Domain overlap (PFAM):
C1:
PF0106717=Calpain_III=FE(46.1=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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]