RnoINT0028977 @ rn6
Intron Retention
Gene
ENSRNOG00000026025 | Capn11
Description
calpain 11 [Source:RGD Symbol;Acc:1302946]
Coordinates
chr9:17737443-17738470:+
Coord C1 exon
chr9:17737443-17737561
Coord A exon
chr9:17737562-17738336
Coord C2 exon
chr9:17738337-17738470
Length
775 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
TGTCCCCTTGCCACCCACAGCTT
3' ss Score
8.79
Exon sequences
Seq C1 exon
GAGACTGCTGGCTGCTGGCCGCCATTGGCTCCCTTACCACGAGCCCCAAACTGCTGTTCCGTGTGGTGCCTAGAAGTCAGAGCTTCAAGAAAAACTATGCTGGCATCTTCCATTTTCAG
Seq A exon
GTAAAGGGAAAACCAGAAAGTGGGGGAGGGAAAGATAGAAGGAGAGAAGAAGGGAGGGAGGGAGGGAGGTAGAGAGAGCTCATGTATGTACTTACTTTGTTTTTCACACGTGACACTGTTTGGGGACACTTTTCAACTAATTTTCAAAGAAATATCTACTTATGAAAGAAATCACGAAAGTTATTTTTTTTAAAGCTCCAAAGAAAACGATGAGCTGTTTGTGGCTCTCTTCCTGTTCTTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTAGTGTGTGCACACACGTGCCTGCATCCACAAATGCACATTAGGTACCATGATACTGAAAATCTCCACCATATAATTTGTATGACCTGGTCCTTTAACCCATAAAGGAACTATTTTAACTGTCATAAAATGGGGAGAGGATTTTAAGATCTCTGAAATTCCAACCTCCAGCTGCCTTTGATTTTCAGGATAGGGTGTCAGTCTGAATGTGGATGGGGTTTTCTTGATCCTTGAAACTTGCATGGTGGAAGGAGAAAAATGACTGACGAACAGACAGACAGTTAGACACACACACACACAATATACCTATACTTATACACACATATACTTTTTTATTTATTTATTTATTTATTTATTTATTTATTTATTTATTTATTGCTAAAGTTTCAGTGAAATTGTCACTGGTATATTTTGTCTTGGCCATGAGAGGGCGCTCTAAGGACAAAGTTCACCTGTATGCAGACAAATGTCCCCTTGCCACCCACAG
Seq C2 exon
CTTTGGCAGTTCGGGCATTGGTTGAACGTGGTGGTGGACGACCGGCTGCCCACTAAGAACAACAAATTGGTGTTCGTGCACGCCTCCCATCGGCAGGAGTTCTGGGGCGCCCTGCTGGAGAAGGCCTACGCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000026025:ENSRNOT00000065754:4
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(13.0=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(14.7=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:
GAGACTGCTGGCTGCTGG
R:
GTAGGCCTTCTCCAGCAGGG
Band lengths:
248-1023
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]