DreINT0041193 @ danRer10
Intron Retention
Gene
ENSDARG00000041864 | capn3a
Description
calpain 3a, (p94) [Source:ZFIN;Acc:ZDB-GENE-040912-97]
Coordinates
chr17:45336390-45336648:+
Coord C1 exon
chr17:45336390-45336473
Coord A exon
chr17:45336474-45336553
Coord C2 exon
chr17:45336554-45336648
Length
80 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAC
5' ss Score
7.2
3' ss Seq
GTGACGTTGTGTGTCTGCAGTGT
3' ss Score
7.4
Exon sequences
Seq C1 exon
TCTCTGGTTCCAGCCCGCTTTGAAACTCGTACTGCGACAGGTCTTGTGAAGGGTCATGCCTACTCTGTGACCGCTGTTGAGGAG
Seq A exon
GTAAACATCAGCATTTGGCACTTCGCATTCCAGATTTTAAGTTGAATCTTTATGATATTTGTGACGTTGTGTGTCTGCAG
Seq C2 exon
TGTAAACAGAGCCAGCAGAAGGAGTCTAGAGTGCGTCTGGTGCGTTTGCGTAACCCCTGGGGTCAAGTAGAGTGGAATGGACCATGGAGTGACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000041864:ENSDART00000148667:2
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:
PF0064816=Peptidase_C2=FE(16.5=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(10.2=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:
CAGCCCGCTTTGAAACTCGTA
R:
GTCACTCCATGGTCCATTCCAC
Band lengths:
167-247
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]