RnoINT0029125 @ rn6
Intron Retention
Gene
ENSRNOG00000003468 | Capn8
Description
calpain 8 [Source:RGD Symbol;Acc:620085]
Coordinates
chr13:101011232-101011957:+
Coord C1 exon
chr13:101011232-101011350
Coord A exon
chr13:101011351-101011823
Coord C2 exon
chr13:101011824-101011957
Length
473 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTA
5' ss Score
7.26
3' ss Seq
GCTGTGTTTCCCACCCATAGTTC
3' ss Score
8.35
Exon sequences
Seq C1 exon
GAGACTGCTGGCTTCTAGCAGCCATTGCCTCCCTCACCTTGAATGAAAAGCTGCTTTACCGGGTGCTTCCCAGGGACCAGAGCTTCCAGAAGGACTACGCGGGCATATTTCATTTCCAG
Seq A exon
GTATTAGTCCTTGCTTGTGACTTAGATATTACTCCAAATCTGTGGCATCAGAAACTTTGGAAGCGAGGTCAAGCTACTGATGTTAGATTTCCCCTCTGGGTGATTAGGGTACATACTCATGTTTGAGAACCATTCCTTTACACACATCTCCAATCATTTCCAATCCGTCTTCATATCCCCCCAGGCCATGGGCCAAGAGACTCGCTATGACTAAGGACCAGGAGATGTGTGTCTGGCCCCCTGGTGATGTTTGAGCAAGCTCTCCTCTCCACAGACTCCAGGGAAGACGAACTGTTTCTCAGTGTCTGTGGCATCTCCCATGTACAGATGGGGCATAAGTCCTTCTCTCAGGGCATTTAAGGCTCATGAAGGTTGGAGACATGCTCACTGACTGTGGAAACCCTACCAAGGATGCCACCGAAGGACCCCTCTCTGCTTCTCCATGTAATCTGTGCTGTGTTTCCCACCCATAG
Seq C2 exon
TTCTGGCAGTATGGAGAATGGGTGGAGGTGGTCATTGATGACCGGCTCCCCACCAAGAACGGGCAGCTGCTTTTTCTACACTCCGAAGAAGGCAATGAGTTTTGGAGCGCTCTGCTGGAGAAAGCCTATGCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000003468:ENSRNOT00000004649:3
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:
GAGACTGCTGGCTTCTAGC
R:
GGCATAGGCTTTCTCCAGCAG
Band lengths:
251-724
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]