RnoINT0029088 @ rn6
Intron Retention
Gene
ENSRNOG00000014251 | Capn5
Description
calpain 5 [Source:RGD Symbol;Acc:620084]
Coordinates
chr1:163080888-163082967:-
Coord C1 exon
chr1:163082890-163082967
Coord A exon
chr1:163081084-163082889
Coord C2 exon
chr1:163080888-163081083
Length
1806 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
CATTCCCTTCCTGCACTTAGGAT
3' ss Score
8.87
Exon sequences
Seq C1 exon
GTCAGAGGAATGGCAGAAAGTGAGCAAGAGTGAGAGGGAGAAAATGGGCGTGACCGTACAGGACGATGGTGAATTCTG
Seq A exon
GTGAGTGTCCTTCTGTTTTGAGTTTGGGACCTTCCTGGGACCTGGCAGGAGCATGGGCCAGCGAGTCAGGGCCACAACATCATCAGCTCGTTATGTAGCCTTGGAAAAATCACACTACCTCTCTAACCCGAGCCTCCTCTGCATTGTATAGAGATGGATCCATCTCCTTTCTGCAGACCTGAGGGACGCCAGGACTGTTCAGTCACCCAGACTGAGTCTTAGCTGGCAAGCCTCAGAGCCAGCTGTCAGTCACCTCAGAGCACCATCCCCTTCATCCAACCCTCTGCATCCATGCCCTGCCTTTGCTAGCTTGTGTCCACCCTGCATCCACCCCCAGTGTCCATCCCCTTATGTCCATCTCTCTATAGCTATTCCGTACAACCCTCCCTTTCTTTTTTTTTTTTTTTTGCTTCTTTTTTTCGGAGCTGGGGACCGAACCCAGGGCCTTGTGCTTCCTAGGCAAGCGCTCTACCACTGAGCTAAATCCCCAACCCCGCAACCCTCCCTTTCATTCCTCCACACCCTATGGTCCACCATTCCCTACCTCTCTGAATACATCGCCCTGTACCCATTCCCTCACATGCAGTCTCTCCACCATCCTGTTGTGTGTACCTGCACCTGCTCACCCCCTTGCTTCTTCCGTCCATTCTCAATACATTCCTTCATCTGTTTCTGTGCCTATTCAGTCTATAAACCCATTCGTTTCCCACATCCAGCCCCTCATCCAGCCCCCTGTACCTGTTCATTATCCAGTATCCATCTCTCGTCCCCTCCCCGTACCTGTTCATTCTCCTGTATTTATCCCTTGCTTTGTATACATTCCCCTACCTGCATCCCTTGCACCCACACATTCCCTGACATCCCTTCCCCTGAGTCCTTTCTGCAGCATTCTATTCGGACTCTGTTGTGTGCCCTATTCTCCTTCACAGCCATTACAGGAGGGCCCGATGTGAGGTACATGCCATGCAGACCCACAGGCCAACCAGGATCAGATGACAGTGACATTAATACCCTAATGGAGCCCCCTTGGACTGGGATGGAGGAGGCTGGCCAGGCCCTCCAGTCAGTGATGCTGTGGACAGAGTCCACTTTGTGCAGTCTGGCTCAGGAGTCAGTTGAGTTAAAACATGGCAGCAGTGCTCCTGTATGGAAAAAGCTGCTTTTCAAGGCATTTCTCAACATATTCAAACCATGCACTTCCTCTGACACTGCCCACACTCCTGGAGGTGTTGTTGGCAACATCCTGGTCACTGCCTTACGCTTAACAAGGCGGGCGGGCGGGTGTTGTCTACCAGTTGAGTCTGGCCTTACAGCAGCCATGGAAGTCAGTGGGTAGAAACAGACCGTACATGATGCACACGACAGGGCTGATGAGAAGACACTTTCCATCAGCCCTGACAACTTCAGCTCCTGGGCCCCGCATGGTGGGAGGGGAGAACCAACTCCCACAGGCTGTCCTCTGACCTCTGAGTGCATGCCGCACACACCTGTGCCCCACCCCCAACAACAAGTGTTCAAAACTGCAATGAAATGTTAAGATATGCACACTGGTTACTAACCCTGTGAACAGCTGCCACAGCCAACACACCAGCTACACGAGCACGCACGCACGCACGCACACGTTCTTGTTTTGCTCAATGCCCTGCCATGCCCGTGAGGCAGGCAACCATTGGCAAGTTCATCCCATTTTACAAACGAGGAACCTGAGGCCCGAGAGGGATTTTGGGTCTTAATGGCATTGTGCCCTGCTTGCTTGCATTCAGAACATGCTGGGGCGCACCGAGCTCATTCCCTTCCTGCACTTAG
Seq C2 exon
GATGACCTTTGAGGACATGTGCCGATACTTCACCGACATCATTAAGTGCCGCCTGATTAATACGTCCTACCTGAGCATCCACAAGACATGGGAGGAGGCCCGGCTGCGTGGTGCCTGGACGAGACATGAGGACCCCCAGCAGAACCGCAGTGGAGGCTGCATCAACCACAAGGACACTTTCTTCCAGAACCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014251:ENSRNOT00000019370:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.185 A=NA C2=0.182
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(8.2=100)
A:
NA
C2:
PF0064816=Peptidase_C2=PD(6.0=28.8),PF0106717=Calpain_III=PU(25.0=54.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGAATGGCAGAAAGTGAGCA
R:
CTGTGGGTTCTGGAAGAAAGTGT
Band lengths:
270-2076
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]