DreINT0041198 @ danRer10
Intron Retention
Gene
ENSDARG00000041864 | capn3a
Description
calpain 3a, (p94) [Source:ZFIN;Acc:ZDB-GENE-040912-97]
Coordinates
chr17:45344817-45345169:+
Coord C1 exon
chr17:45344817-45344828
Coord A exon
chr17:45344829-45344960
Coord C2 exon
chr17:45344961-45345169
Length
132 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGA
5' ss Score
8.55
3' ss Seq
GACGCTGTTGTGTCTGTCAGATG
3' ss Score
8.76
Exon sequences
Seq C1 exon
GTGCCAAAGGAG
Seq A exon
GTATGAAAATGTTAAGAAGACTGTTTGGACCCAAGGCTTGTGTATATCACGTTTAAAACATTTGTGCTGCTTTATAGATAGATTATAGCGTCCTAATCATATTCCCTTCTTTGACGCTGTTGTGTCTGTCAG
Seq C2 exon
ATGCATGGAAATAAGCAGCACATGCAGAAGGAGTTCTTCATGTCTACCACCGCTAAGGCTCGGTCCAGGGCCTACATTAACCTGCGCGAGGTCACCCAGCGTTTCCGTCTGAGTCCCGGAGAGTACGTCATCATTCCCTCTTCTTACGAGCCCCATCAGGAAGGCGAGTTCATCCTCCGCGTCTTCTCTGAAAAGAGAAATACTTCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000041864:ENSDART00000148667:7
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=0.173
Domain overlap (PFAM):
C1:
PF0106717=Calpain_III=FE(1.9=100)
A:
NA
C2:
PF0106717=Calpain_III=FE(44.5=100)
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]