RnoINT0029086 @ rn6
Intron Retention
Gene
ENSRNOG00000014251 | Capn5
Description
calpain 5 [Source:RGD Symbol;Acc:620084]
Coordinates
chr1:163083401-163084707:-
Coord C1 exon
chr1:163084515-163084707
Coord A exon
chr1:163083595-163084514
Coord C2 exon
chr1:163083401-163083594
Length
920 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGG
5' ss Score
8.76
3' ss Seq
CTGTCCTGTTTGTTCTGCAGGCT
3' ss Score
11.26
Exon sequences
Seq C1 exon
GCTGGCAGGCTGTTACCAGGCCCTGGACGGAGGCAACACAGCCGATGCACTGGTGGATTTCACAGGCGGTGTTTCGGAACCCATCGACCTGACCGAGGGGGACTTGGCCACAGATGAGGCTAAGAGAAGCCAGCTCTTTGAACGTGTGTTGAAGGTGCACAGCAGAGGTGGGCTCATCAGTGCCTCCATCAAG
Seq A exon
GTAGGGCTGCAGGGAAGACTGCAAGGCTTGCATGGGAGGGAGTGCGACTGAGCTTGGGCCCCAGCCAGCACATCATAATGACCCTTGGCTTTCTGAGGGATGCAGTAGTTGGAGAGTATAGCTTCCCTTCCCCAGAGCTGACCAGCAATGCAAATCCAACTCCATCCCTTGCACCATGCAATGCCCTTACACCATTCACACCCCACTCAGACACCCCTGGGCTCCTGCGTCCCTGCCTTTGAGGTACTTTGTCAAGGTATAAAGTGTCAAAAGTTAAGGGGAAGCTGGTAGAGGACAGGGAGTCCCGACTTCCTTTAGGTGATCTAGAGCTGCTCGTCAGGGGCGTCCTCTGCTCAGTCACTGCTGGGAGAAAGGTGGGTTCATTGAACCCAAGATAAGCAAGCTGTCTGTGGAGTCTGGTCAGCTGACTCTCTAGAAACTTAGATTTATGGCATCTGCTAAGTTCCATGGTATAAACACTCCCATCAAAGTCAATTTCCTATTGCTTAGGTTTTCACAAACATCTCTTAACATTTCTGAGTATTACCACCAGGCATGGTGCTGCACATCTGTAATCTCAGTACTTGGGACTTGCTAGGCAGAGGCAGGAGGATCTCGCCAAGTTCAAAGCCAGCTGAGTCTAAATAAAGAATTGTAGGTCAGCCAGGCCTGTGTATTGAGACTTGAAAAAGCTCTAAGTACATAGCAATCAGCTGCAGTGGGCCAAGTTGGCACCACGATACTCTGAGCAGGTCGGGGGCTTCTGTGTGTGGACCTCTGGGGTTCTGACCCTTTAGCAAGAGCTTTCTGTGAGGCTGCAGTTGCCATCCCTCCCTGAAGGGGCAATGTGGCTCCTTAGCCTAGCTCCAGTGCCTTAGTTTAGATTCCAGTGTGTCCCTCCTGTCCTGTTTGTTCTGCAG
Seq C2 exon
GCTATGACAGCAGCTGACATGGAGACCCGTCTGGCCTGTGGTCTGGTGAAGGGCCATGCATATGCTGTCACCGATGTGCGCAAGGTGCGCCTGGGCCATGGCCTGCTGGCCTTCTTCAAGTCAGAGAAGCTGGACATGATCCGTCTGAGGAACCCCTGGGGCGAGCGGGAGTGGACCGGGCCCTGGAGTGACAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014251:ENSRNOT00000019370:5
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=0.031
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(20.1=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(20.1=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:
GCTGGCAGGCTGTTACCAG
R:
GGGGTTCCTCAGACGGATCAT
Band lengths:
349-1269
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]