RnoINT0029087 @ rn6
Intron Retention
Gene
ENSRNOG00000014251 | Capn5
Description
calpain 5 [Source:RGD Symbol;Acc:620084]
Coordinates
chr1:163082890-163083594:-
Coord C1 exon
chr1:163083401-163083594
Coord A exon
chr1:163082968-163083400
Coord C2 exon
chr1:163082890-163082967
Length
433 bp
Sequences
Splice sites
5' ss Seq
CACGTGAGG
5' ss Score
5.78
3' ss Seq
CCCCAATACTCACATCCCAGGTC
3' ss Score
4.47
Exon sequences
Seq C1 exon
GCTATGACAGCAGCTGACATGGAGACCCGTCTGGCCTGTGGTCTGGTGAAGGGCCATGCATATGCTGTCACCGATGTGCGCAAGGTGCGCCTGGGCCATGGCCTGCTGGCCTTCTTCAAGTCAGAGAAGCTGGACATGATCCGTCTGAGGAACCCCTGGGGCGAGCGGGAGTGGACCGGGCCCTGGAGTGACAC
Seq A exon
GTGAGGCCCACCAGGGTTGGGGATGGGTACAGGCACAGAAGCAAGGACAAGAGGTGACACTGGACTGGGTCTTGCAGTGTCTGGGAGAGGTGCTCTGAGGAAAAAATAGACGACTTACTTTCCAGTGTAAGCATGTGTCTGGGGGGTTGGGGGACAGTGGCCTGGAGAAGGGTGACATGGTTTGTACTTTGTGGTCCCAAGAGGCCACAGCACCTCACTAACTTTATTTCCTTACTTTGTAGCCCTGGCATAAAAAAGATCACAGTCTCTAGTGGGAGAAAGCAGAGGCTTCTTAGAGCTGGGCTGGACATGACCTCCAAGTTCTCTGCCCGCACTGCTCTGCGGGTGGCTTGGCCCAGAGCTCTCCCATGGGGAAGTGGTCCTGGCAGGCCACTCCTCTTATACTGTTCCCTCCCCAATACTCACATCCCAG
Seq C2 exon
GTCAGAGGAATGGCAGAAAGTGAGCAAGAGTGAGAGGGAGAAAATGGGCGTGACCGTACAGGACGATGGTGAATTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014251:ENSRNOT00000019370:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.031 A=NA C2=0.185
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(20.1=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(8.2=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:
TATGACAGCAGCTGACATGGA
R:
CAGAATTCACCATCGTCCTGT
Band lengths:
270-703
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]