DreINT0041269 @ danRer10
Intron Retention
Gene
ENSDARG00000012341 | capn9
Description
calpain 9 [Source:ZFIN;Acc:ZDB-GENE-010724-2]
Coordinates
chr1:53236694-53236944:-
Coord C1 exon
chr1:53236861-53236944
Coord A exon
chr1:53236780-53236860
Coord C2 exon
chr1:53236694-53236779
Length
81 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAAC
5' ss Score
4.07
3' ss Seq
TATTTTTCTTGTCTCTTCAGGTC
3' ss Score
12.35
Exon sequences
Seq C1 exon
ATCACTAGTTCTGCTGAATCTGAAGCCCAAACCTCTACTGGTCTGGTGAAAGGCCACGCTTACTCCGTCACTGGAGTGGAAGAG
Seq A exon
GTGAACGCATCAATCCGCATTCCTCGTATCTTTGTTTAGCTCAGATTTTCTTTAGATTCATTATTTTTCTTGTCTCTTCAG
Seq C2 exon
GTCAACTACAGAGGAGCGAAGGTCCAGCTGATTCGTGTACGTAACCCCTGGGGTCAGGTGGAGTGGAACGGGCCGTGGAGTGACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000012341:ENSDART00000007732:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.036 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(9.1=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(9.5=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:
ACTAGTTCTGCTGAATCTGAAGCC
R:
TTGTCACTCCACGGCCCG
Band lengths:
167-248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]