DreINT0041261 @ danRer10
Intron Retention
Gene
ENSDARG00000012341 | capn9
Description
calpain 9 [Source:ZFIN;Acc:ZDB-GENE-010724-2]
Coordinates
chr1:53227764-53228004:-
Coord C1 exon
chr1:53227936-53228004
Coord A exon
chr1:53227843-53227935
Coord C2 exon
chr1:53227764-53227842
Length
93 bp
Sequences
Splice sites
5' ss Seq
ATCGTAAGT
5' ss Score
10.44
3' ss Seq
AACGTTGTTTTTTGTTGCAGATG
3' ss Score
11.06
Exon sequences
Seq C1 exon
GTGGATGGATCAGGAATGATGGAATTTTCCGAGTTCAAAGTCTTCTGGGATAAACTCAAGAAGTGGATC
Seq A exon
GTAAGTTACAGGATCATATATTTACTTGTCAGTTGTCGGTTTACAATGAATAACCTGCATCGTTACACAAATCAACGTTGTTTTTTGTTGCAG
Seq C2 exon
ATGCTGTTTCTGTCTTATGATGTGGATCGTTCTGGAACCATGTCTTCCTATGAGCTCCGCAGCGCTCTTAATGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000012341:ENSDART00000007732:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF138331=EF-hand_8=PD(29.5=78.3),PF134051=EF-hand_6=PU(5.9=8.7)
A:
NA
C2:
PF134051=EF-hand_6=FE(76.5=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:
GTGGATGGATCAGGAATGATGGA
R:
CTGCAGCATTAAGAGCGCTG
Band lengths:
148-241
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]