RnoINT0029000 @ rn6
Intron Retention
Gene
ENSRNOG00000020389 | Capn12
Description
calpain 12 [Source:RGD Symbol;Acc:1307341]
Coordinates
chr1:87071016-87071255:+
Coord C1 exon
chr1:87071016-87071101
Coord A exon
chr1:87071102-87071180
Coord C2 exon
chr1:87071181-87071255
Length
79 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGA
5' ss Score
6.71
3' ss Seq
TCTCACATTGGTTTCCTCAGCTG
3' ss Score
6.26
Exon sequences
Seq C1 exon
ATGTCTCTGGGCTTCACCAAGGTGCGGCTGCTGCGGCTGAGGAACCCCTGGGGCCGCGTGGAGTGGTCCGGGCCCTGGAGCGACAG
Seq A exon
GTGGGAGGGGCTTGGGATGGGTGGGGGCGTGGCCATGGGCGTGGCCCCACATGCCTTCCTCTCACATTGGTTTCCTCAG
Seq C2 exon
CTGCCCACGCTGGGACATGCTCCCCTCTGAGTGGAGAGATGCCCTGCTTGTGAAAAAGGAGGATGGCGAGTTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020389:ENSRNOT00000027645:7
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(9.4=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(8.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTCTCTGGGCTTCACCAAGG
R:
CAGAACTCGCCATCCTCCTTT
Band lengths:
160-239
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]