DreINT0041190 @ danRer10
Intron Retention
Gene
ENSDARG00000041864 | capn3a
Description
calpain 3a, (p94) [Source:ZFIN;Acc:ZDB-GENE-040912-97]
Coordinates
chr17:45355496-45355800:+
Coord C1 exon
chr17:45355496-45355574
Coord A exon
chr17:45355575-45355683
Coord C2 exon
chr17:45355684-45355800
Length
109 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
GTGTCTTGTGTGTCACTCAGGGT
3' ss Score
8.18
Exon sequences
Seq C1 exon
GAAATCTTTAAGCGCTATGACTTTGATCATAATGACACTATCAGCAGCTATGAGATGAGAAACGCCATCAATGACGCAG
Seq A exon
GTCAGTCTTGAGTTTTGAGTTCATGTGTTCATCTGTTGCGCTGAAGGACATTCGACTAACCCTGCTGGATTTGTTCACTGTACAGTCACGTGTCTTGTGTGTCACTCAG
Seq C2 exon
GGTTCCGTCTGAACAACCAGCTGTATGACATCATCACCATGCGCTACGCCAACGAAAGCATGAATGTCGACTTTGAGAGTTTCATCAGCTGCCTTGTGCGACTGGAGGGGATGTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000041864:ENSDART00000148667:14
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:
PF134991=EF-hand_7=FE(28.3=100)
A:
NA
C2:
PF134991=EF-hand_7=FE(40.4=100),PF144351=SUKH-4=PU(56.5=89.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATCTTTAAGCGCTATGACTTTGA
R:
TGAACATCCCCTCCAGTCGC
Band lengths:
194-303
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]