RnoINT0029073 @ rn6
Intron Retention
Gene
ENSRNOG00000008609 | Capn3
Description
calpain 3 [Source:RGD Symbol;Acc:2269]
Coordinates
chr3:112256043-112256892:+
Coord C1 exon
chr3:112256043-112256176
Coord A exon
chr3:112256177-112256723
Coord C2 exon
chr3:112256724-112256892
Length
547 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGG
5' ss Score
7.66
3' ss Seq
ACTTTTGTCCTCTCTCCAAGGCT
3' ss Score
7.84
Exon sequences
Seq C1 exon
TTCTGGCGCTATGGAGACTGGGTAGATGTGGTTATTGACGACTGTCTGCCGACATACAACAACCAGCTGGTCTTCACCAAATCCAACCACCGCAATGAGTTCTGGAGTGCTCTACTGGAGAAAGCATATGCCAA
Seq A exon
GTAAGGCAACATTTGGGATGGGAGACAGGACTACAGGTGGGGATATGGATTTCAAGAATCAGCCAAAGTCTCCCTCACGTTGGCCTAGGCATGTGTATACTATACATGCTCATGTGGATTGTGGGAGTTCAGTCCAGACTCCCAGTCGGCTTGAGATCAGGTCCAGGCAGTAGGAGCCCTATCTGAAAAACATAAACAAAAAGGTATAAAGACGTGTGCAGTAAATCTTCAGCTTCCCGCTGCCGGCTCTTTGATCTTGCCTTCCCGGTGGCGTTTCAAGTCTTGGATCAGCTCATTGCATCTCTGGAGTTCAACTCCTAGGATCTAACTTACTTAAAACCATGTACTTGTAGCCTGTTCGTAGGGCCAAGTTGTCTCTTACCTCAGGCCTCCACCTCCACCACTGGATTTAGCAGTGGAAGAGTGCTGTGGGGAATAGGGACAGTCAGGGACAATGCTTCTGGCCCTCTGTGGCATTGTGTTAACTCAGCTGGTCATACTTCCTGGGGCTCCTAGACTCTAGATTGACTTTTGTCCTCTCTCCAAG
Seq C2 exon
GCTCCATGGTTCCTATGAAGCTCTGAAAGGTGGGAACACCACAGAAGCCATGGAGGACTTCACAGGAGGGGTGACAGAGTTTTTTGAGATCAAGGATGCTCCGAGTGACATGTACAAGATCATGAGGAAAGCTATCGAGAGAGGCTCCCTCATGGGCTGCTCCATTGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008609:ENSRNOT00000011761:4
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(21.6=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(27.5=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:
TTCTGGCGCTATGGAGACTGG
R:
ATCAATGGAGCAGCCCATGAG
Band lengths:
303-850
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]