RnoINT0028972 @ rn6
Intron Retention
Gene
ENSRNOG00000026025 | Capn11
Description
calpain 11 [Source:RGD Symbol;Acc:1302946]
Coordinates
chr9:17748339-17748613:+
Coord C1 exon
chr9:17748339-17748417
Coord A exon
chr9:17748418-17748496
Coord C2 exon
chr9:17748497-17748613
Length
79 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGCC
5' ss Score
3.48
3' ss Seq
TCTTCCCGCCTGCTCCCTAGGCA
3' ss Score
9.05
Exon sequences
Seq C1 exon
GAAATCTTCAAAGAGTGTGATCAAGACCGCTCAGGGAACTTGAACTCCTACGAGATGCGCTTGGCAATAGAGAAAGCAG
Seq A exon
GTGGCCAAGAGGCAGGGAAGCTGGGGGGTTATTCGAGGGCCTGAGTCCCACCCTTACTGTCTTCCCGCCTGCTCCCTAG
Seq C2 exon
GCATCAGAATGAACAACAGGGTGACTGAGGTGGTCGTTGCTAGATATGCAGATGCCAACATGATCGTGGATTTTGACAACTTCATCAACTGTTTCCTAAGGCTCAAGGCCATGTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000026025:ENSRNOT00000065754:19
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:
PF0003627=EF-hand_1=PD(86.2=92.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATCAAGACCGCTCAGGGAA
R:
GCCTTGAGCCTTAGGAAACAGT
Band lengths:
171-250
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]