RnoINT0028978 @ rn6
Intron Retention
Gene
ENSRNOG00000026025 | Capn11
Description
calpain 11 [Source:RGD Symbol;Acc:1302946]
Coordinates
chr9:17738337-17738831:+
Coord C1 exon
chr9:17738337-17738470
Coord A exon
chr9:17738471-17738662
Coord C2 exon
chr9:17738663-17738831
Length
192 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
AGCACCCTATCTGCCTGCAGGCT
3' ss Score
8.18
Exon sequences
Seq C1 exon
CTTTGGCAGTTCGGGCATTGGTTGAACGTGGTGGTGGACGACCGGCTGCCCACTAAGAACAACAAATTGGTGTTCGTGCACGCCTCCCATCGGCAGGAGTTCTGGGGCGCCCTGCTGGAGAAGGCCTACGCCAA
Seq A exon
GTAAGTTGCCCAGGCCAGGAACCAGGCTGGCCTTGAGCCGCATGGCCTGGGCTGCCAAGGAAAGTGGGCCAGGCCATTAACTGAACCAGGGGAGGAGACAGACCATGATAAGGCACGCCTCACTTCCTCCACCATCCTGCCCGACTGCTCGCTCCAACTTGCATCTCCTAACAGCACCCTATCTGCCTGCAG
Seq C2 exon
GCTGAATGGATCCTACGAAGCACTGACTGGAGGCAGCACCATGGAGGGTTTGGAAGACTTCACAGGCGGCATGGCACAGTGCATTCGGCTCCAGAATCCCCCTCACAACCTGCTAAGGCTCCTCAGGAAAGCCTTGGAGAAGTCTTCCCTCATGGGTTGCTCCATCGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000026025:ENSRNOT00000065754:5
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(14.7=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(18.7=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:
ATTGGTTGAACGTGGTGGTGG
R:
TGAGGAGCCTTAGCAGGTTGT
Band lengths:
243-435
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]