RnoINT0029021 @ rn6
Intron Retention
Gene
ENSRNOG00000032375 | Capn13
Description
calpain 13 [Source:RGD Symbol;Acc:1562682]
Coordinates
chr6:24620098-24621141:-
Coord C1 exon
chr6:24620967-24621141
Coord A exon
chr6:24620173-24620966
Coord C2 exon
chr6:24620098-24620172
Length
794 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
TCTGTTCTTCCTTTCTGCAGCTG
3' ss Score
11.74
Exon sequences
Seq C1 exon
GCTGCTAGGCTCATATTCCCAATTACACTATGGCTACCTTCCTGATGCGCTGGTGGACCTCACAGGAGGAGTGGTCACCAGGATCAACCTGCACTCCTCTCCCTCTGACCTATTGATGGTAGTGAAGACCGCAGTCCAGACAGGCTCAATGGTGGCCTGTGCCACCCCAAAGTGG
Seq A exon
GTGAGTAGATGGGGGCTTCCTTGGTACCCAGCAGTTTTTTCTTCACCTAGAAGTGTCCATCTATATCTTCTCTCTGAGGCAGGGATTCCAAATTCATATCATAGACAAGGAAATGAGCTCAGAGAAACTAAGTGAAGTTTCAGAGTCACACAGCTACAGTGCACAATCTGAATGCAGCTGACCACCAAATCCTTCCATATTGCTCCCTTCTGACCAGGAGCAGCATGTGACCCAGAGTGACCAGAAGGATGGCCAGGTTAGAGAAAGCAACCACAGCAACCATAGTGGCTCCACTGTATTTTCTTTATATTTATAAAGAGCCCCGATTCTCACCAGTCATAGAAGTAGCAGGTCTCATAGGTTACATAACATCCAAATTATTTGAGTCTGTTCTAAAACAGCTGGCTCCCTGTCTAAATGATACTTCCTGTTCTCTTAAACATTGGCCAAGTCACACCATTCCTTGCAGAGGGATGTTGTTGAGTCTAGGAGACCCTACTGACATGGGTTTTGCTATGTCTTGCTCATGACAAATGATCAGTGGAGCAATTAGTACTTGTCCTCAGAGCCCCATGAGTTTCATAGTCAGTGGGGTGGGTAGCTCCTGGCCATGAAATATTGAGACCTCTTACCCAATAGCCTCCAGTTGTAACTCATAGTAACACACACACACACACACACACACACACACACACACACACACACACACCCCTTTCTTGCTGGGTGGTGGCTCACTAATTCAGTTGTGCTACTGTCTGAATGTCTCCAAAGAACTCTGTTCTTCCTTTCTGCAG
Seq C2 exon
CTGACAGAAGAGTCCGAGGTTATGGAGAATGGGCTGGTGAGCCAGCATGCATACACAGTGACTGGAGCTGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000032375:ENSRNOT00000047853:6
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(19.5=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(8.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGCTAGGCTCATATTCCCA
R:
TCTCAGCTCCAGTCACTGTGT
Band lengths:
248-1042
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]