DreINT0041195 @ danRer10
Intron Retention
Gene
ENSDARG00000041864 | capn3a
Description
calpain 3a, (p94) [Source:ZFIN;Acc:ZDB-GENE-040912-97]
Coordinates
chr17:45339480-45339809:+
Coord C1 exon
chr17:45339480-45339557
Coord A exon
chr17:45339558-45339648
Coord C2 exon
chr17:45339649-45339809
Length
91 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
CTCTTGTCGTCAACCTGTAGGAT
3' ss Score
8.56
Exon sequences
Seq C1 exon
TTCTAAAGAATGGGAAAGTCTTTCTAAAGCGGAAAAAGAGAAACTCCAGCAACAGAACGCTGAAGATGGAGAGTTTTG
Seq A exon
GTGAGTTAAACAAGCCAACTTATCTTTATGAACGGTTTCATGTGTTTTGATAAGATAAATGCGAGCTTTAACTCTTGTCGTCAACCTGTAG
Seq C2 exon
GATGTCGTTTGAAGATTTTAAGAAAAATTACACCAAAATTGAGATTTGTAACTTGACACCTGATGCCCTGGAGGACGATAAGCTACATAAGTGGACAGTGTCTGTCAATGAGGGCCGCTGGGTGAGAGGCTGCTCTGCCGGAGGATGCAGAAACTATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000041864:ENSDART00000148667:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.370 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(15.9=100)
A:
NA
C2:
PF0064816=Peptidase_C2=PD(11.6=34.5),PF0106717=Calpain_III=PU(15.5=43.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAACTCCAGCAACAGAACGCT
R:
AGAGCAGCCTCTCACCCAG
Band lengths:
174-265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]