RnoINT0029060 @ rn6
Intron Retention
Gene
ENSRNOG00000008609 | Capn3
Description
calpain 3 [Source:RGD Symbol;Acc:2269]
Coordinates
chr3:112268492-112269580:+
Coord C1 exon
chr3:112268492-112268700
Coord A exon
chr3:112268701-112269543
Coord C2 exon
chr3:112269544-112269580
Length
843 bp
Sequences
Splice sites
5' ss Seq
TGAGTGAGT
5' ss Score
6.51
3' ss Seq
TACGCTTGTGTTTTTCACAGGGA
3' ss Score
9.67
Exon sequences
Seq C1 exon
ATGCACGGGAATAAGCAACACCTGCAGAAGGACTTCTTCTTGTACAATGCCTCCAAGGCCAGGAGCAAAACCTACATCAACATGCGGGAGGTGTCCCAGCGCTTCCGCCTGCCGCCCAGCGAGTATGTCATTGTCCCCTCCACTTACGAGCCCCATCAGGAGGGGGAATTCATCCTCCGGGTCTTCTCTGAAAAGAGGAATCTCTCTGA
Seq A exon
GTGAGTACCAGCCTAGCTTTCCCCACCTGTCCCTAAAAGGTCACTCATGTGGCCCATCCCACAGCCAGGAGGCAGCTGGACCAATTTCCTTCAGGGCTCTTGGGACACACCTACTGGCCTTTGTCATTCTCCATTCTGGAGCTTGTGTTCCCTCATTCCCTTGATTGCCTTTTACAGCACTGGAGTGTAAACCCAGGGCCTCACGGGTTTGCCTCAGTTTCCCACGTTGGTCTTGAATCTTTGATTCTCTTACCCCAGCCTCCAGAAGAGTTGCAATTATAGCCCTGTGGCACCGGAGCAGCCCACAAATATTTGTTCACTCCATTCATCCTGCAGATATTTTTGAGCAACCAGTCTATTACAGGCACTGGGGATCGTGAAGTGAATTAAACAGAAGGGGCTCCATGCCTTCCTGGAGCTTAACGCTCTTGGGACAAGGGATAAGAAAACATATATTGTTTTATAGAAACGTTGGATTTATAGACATATTAAGCGGTTGGGATGCACGGGAAGCCGGCCAGGCTACATCTCTGCAGATGTACTGACAGACCCTGGCTCTCTGAGCTCTGCCTCCGGTAGAGATGCTAGGCCTGTTGCTGGGTAGCTGGGCTGTGCTTTGGGGGAGCTCTGGGCAACACCAACAAGAAGCTGTGTGCCTGGGCTTTTCTGGGAATGGCATCTACAGGAGGCTGGCTCCTGGGGTGAGTGTTTAGTCCCAGGCTTTTTTAGATTTAATCTCAAATCTCTGACCACAAAGAAGCCATGTGACCCGAACAAATTCCTGGGGGTGATTCCTGTTTGTTCCGGGGATATTAAGACAGCCTACGCTTGTGTTTTTCACAG
Seq C2 exon
GGAAGCTGAGAATACAATCTCTGTGGACCGGCCAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008609:ENSRNOT00000011761:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.025 A=NA C2=0.846
Domain overlap (PFAM):
C1:
PF0106717=Calpain_III=FE(44.5=100)
A:
NA
C2:
PF0106717=Calpain_III=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGCACGGGAATAAGCAACAC
R:
CACTGGCCGGTCCACAGAG
Band lengths:
246-1089
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]