RnoINT0028969 @ rn6
Intron Retention
Gene
ENSRNOG00000026025 | Capn11
Description
calpain 11 [Source:RGD Symbol;Acc:1302946]
Coordinates
chr9:17747194-17747434:+
Coord C1 exon
chr9:17747194-17747251
Coord A exon
chr9:17747252-17747369
Coord C2 exon
chr9:17747370-17747434
Length
118 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGT
5' ss Score
7.8
3' ss Seq
ACCCCTTCCCTTCCTCACAGTCA
3' ss Score
10.9
Exon sequences
Seq C1 exon
GACAGCCAAGTAGATATGTATGACCTACAAAAACTTCTCAACAAGATGTCAAGTAAAT
Seq A exon
GTGAGTGGTCCACCACACCCTCGTGGCTCCTCCCACCCCATCTGGTCCCCGTCCCCGCCCCGCCTCCTTGATGCTGTACTCATCCACCTCTTCTTCCTACCCCTTCCCTTCCTCACAG
Seq C2 exon
TCAAGAGCTTCAAGTCGAAGGGCTTTAGCTTGGATGTCTGTCGCCGTATGGTCAACCTCATGGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000026025:ENSRNOT00000065754:16
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:
PF138331=EF-hand_8=PU(31.7=95.0)
A:
NA
C2:
PF138331=EF-hand_8=FE(35.0=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:
ACAGCCAAGTAGATATGTATGACCT
R:
GTCCATGAGGTTGACCATACGG
Band lengths:
122-240
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]