DreINT0041265 @ danRer10
Intron Retention
Gene
ENSDARG00000012341 | capn9
Description
calpain 9 [Source:ZFIN;Acc:ZDB-GENE-010724-2]
Coordinates
chr1:53238730-53239904:-
Coord C1 exon
chr1:53239835-53239904
Coord A exon
chr1:53238849-53239834
Coord C2 exon
chr1:53238730-53238848
Length
986 bp
Sequences
Splice sites
5' ss Seq
TGGGTATGT
5' ss Score
7.43
3' ss Seq
CTTTATGTATGGCCATGCAGGAG
3' ss Score
6.02
Exon sequences
Seq C1 exon
GAAATTTGCAAAGAGCCACAGTTCATCACCGGAGGAGCCACCAGGACCGACATCTGTCAGGGGCAGCTGG
Seq A exon
GTATGTGCCCATTTTTGTTTTTATTTTCCAGGTAGATAGACAGACCGACCGACAGACAGATAGATAGGCAGACAGACAGACAGACAGACAGATAGATAGATAGATATATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGACAGACAGACAGACAGACTGACACACAGACAGACAGACCGATTGATTGATTGTTAGATCGACTGACTGACTGATCGCTAATCGATATCGTTGGATATCGATGGATAAATAGAACTATGGATGGATGGGTGAATGGATAGATAGATAGATAGATAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGATAGATAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACCGATTGATAGATAGACCAGCTGACCTCCTGACAGACAGACAAATCGACCAACCAATCGATCGATCGATACATAGATAGATAGACACACAGATAGACAGACCAATCGATCGATAGATAGACCGACCGACCGGTCGATTGATCAATAGATAGATAGATAGACAGATAGATGGATAGATAGATAGATAGATAGATAGACAGATAGATGGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATTGACTGACTCAACGACAGACAGATGATTTGGGTGAATTTTTAAGATTATTTTAAATTACACTTCTAAACCAAACTCATTGGTTTTCCCATATTTGACCCAACGTTGGGTTACAACAACCCAGCATTTGACTAATCTCCCTTTTGTCCTTTATGTATGGCCATGCAG
Seq C2 exon
GAGACTGTTGGCTGTTGGCAGCGATTGCCTCTCTAACTCTCAAAGAGGAAACACTAAATAGAGTTGTACCAAATGACCAGACCTTCGATCGCGGTTATGCTGGAATCTTCCATTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000012341:ENSDART00000007732:2
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(7.8=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(13.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]