RnoINT0029080 @ rn6
Intron Retention
Gene
ENSRNOG00000014251 | Capn5
Description
calpain 5 [Source:RGD Symbol;Acc:620084]
Coordinates
chr1:163077055-163078066:-
Coord C1 exon
chr1:163077870-163078066
Coord A exon
chr1:163077171-163077869
Coord C2 exon
chr1:163077055-163077170
Length
699 bp
Sequences
Splice sites
5' ss Seq
CCGGTGTGT
5' ss Score
6.56
3' ss Seq
CTTACCCTGCCCTGTTTCAGGGA
3' ss Score
10.47
Exon sequences
Seq C1 exon
GTGGAAGAGAACCGCCAGTACCGGATGCACAGCCTGCAGCATAAGGCCGCCAGCTCCATCTACATCAATTCTCGGAGTGTTTTCCTGCGGACAGAGCTGCCTGAGGGCCGCTACGTCATCATCCCTACCACCTTTGAGCCAGGCCACACTGGCGAGTTCCTGCTCCGCGTCTTCACAGACGTTCCCTCCAACTGCCG
Seq A exon
GTGTGTGTTTGGGGGCCAGGGCTAGTGACCATACAACCCATGCTGGCCTGGAGGAATCTGTGGCCCTAGCCTGAATGTGTCTGCTCAGGGCATGGCGCCTGGGCACCAGCAACCTCAGGGATGGGCGTCCATTGTTTCTCTCTTCCCCTGCTTGCCTGCCTAACTTGTCTTGGTTCTGACTAGGAACAGGGACTCATATGTGCATTTAACAATTTATAAAAAGGCTTTCACTTGTCTTATTTACCATCTCACACCCAAAATGTGAGACCTAACCACTCCATTTTATAGATAAACGGGAGGCCTAACCACTCCATTTTATGGATAGAGACCAACTCTAGAAAGAGGGACTGGCGCCATGCCGTCAGTGGTAGTATGGACCAAGCCACCCCTCAACTGGATTTCAACACAGGCCTTACCATTACTACCACCTGTCCCGTGGAGACTGGCTTTAGGGGGCAGTAGGCTGCTAAAACCATTTTGAGGCTGAGAAATAATATCTATAATACCCAACAGGGGATGTGTCATACGGGAAGTGCTAAGTACTTTGCCGTCCTGAGACGAGATGGAACAGGGAGTCTGGAAGCCTATGGTAGTGAGTGGTTGAGTTTGCCGTGAGGTTTGATTAGCTCCTTGTTTTGAACCCCATCTTCACGTCTGCCTTTTGCCACCCATTCATCCCCTTACCCTGCCCTGTTTCAG
Seq C2 exon
GGAGCTACGCCTGGATGAGCCCCCTCGTACCTGCTGGAGCTCCCTGTGTGGCTACCCTCAGCAGGTGACCCAGGTCCATGTCCTGGGAGCTGCTGGCCTCAAGGACTCTTCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014251:ENSRNOT00000019370:10
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:
PF0106717=Calpain_III=FE(45.1=100)
A:
NA
C2:
PF0106717=Calpain_III=PD(0.1=0.0),PF0016825=C2=PU(20.5=40.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGAAGAGAACCGCCAGTAC
R:
TGGAAGAGTCCTTGAGGCCAG
Band lengths:
310-1009
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]