DreINT0041256 @ danRer10
Intron Retention
Gene
ENSDARG00000012341 | capn9
Description
calpain 9 [Source:ZFIN;Acc:ZDB-GENE-010724-2]
Coordinates
chr1:53231428-53232521:-
Coord C1 exon
chr1:53232313-53232521
Coord A exon
chr1:53231465-53232312
Coord C2 exon
chr1:53231428-53231464
Length
848 bp
Sequences
Splice sites
5' ss Seq
CATGTATGT
5' ss Score
5.71
3' ss Seq
TTCATTGCTATGTTTTTCAGTGA
3' ss Score
7.35
Exon sequences
Seq C1 exon
GCTCCCGATGATCAAGACCACCAGGGCAAAGATTTTTTCCGCTATAATCCCTCTAAAGCACGGAGCCGTACTTATATCAACGTGAGGGAGGTTTCCGAGCGCTTCAGACTGCCGCCTGGAAACTACCTGCTGGTGCCCACCACCTTTCAGCCGCACAAAGAGGCTGATTTCCTCATCCGCCTCTTCTCTGAGAAGAAAGCTGGAGCCAT
Seq A exon
GTATGTCTACAATACATTTACCACAATATTAAAGCCATAGCATAATCTACTCACATTTACTCATGTTATTCTGTCTTTCTATGTTGTTGTTTACTCTGATTTAAATACAGCAGGTTTCTCTCAACACTTACCTGAACCATATCTGACAGAATTATACAGCGTTCATGACTTTATTATAGGAATGCACCGATATGGAATTTTTGAATGGTACCGATAACTGATAACTCTTTAGATTTGGAGGCTGACAGCCAATATGTTAGTCAATAAATATGAGCAAGATGAGCAAAATGAAAACATGGTGTCAGGCAGCAACCATGTGAAGTGGTTCCACCAGTGGAAATTTTACATAATTTATCGGCTTAAACATATTGACCTAATTTTATTATCAGAGCGAAAATTAAAGCTTTTAAAGTAGGGATGCATGATATATCGGTGGCCATATTGATATTGGCCAATAAATACTATATTTAATGATGTAAATATAGCATTTATCGGCCGATATCGTTATGGCCACCGATATATTGTGCATCCCTATTGTAATTATACTATATTAATTATACTTTATGTTGTGAGTATATTTTTTGTGATGCACAGGGATAAATCCGATTTTGGAATATCTTTGGTTCGTTAATTTTTTATTAGAATTTGTTTAGCTAGCTTCATGCATCAAGCCACCAGTCATTATACACAAATTTATAAATGCATTTATGAATTAATTTCCTTACTCAATTGCTTGTACCCCATTATATATCTATAGTGAACTACAAAATAAAATTTCCATTAGATTTTATTTGCTTTGAACAACTGAACCCAATCATGAACTGATTCTTCATTGCTATGTTTTTCAG
Seq C2 exon
TGAGGTGGGAAACAAAATTGAAGCTGATCTGCCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000012341:ENSDART00000007732:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.086 A=NA C2=0.769
Domain overlap (PFAM):
C1:
PF0106717=Calpain_III=PD(46.6=97.1)
A:
NA
C2:
NO
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:
GCTCCCGATGATCAAGACCAC
R:
CTCTGGCAGATCAGCTTCAAT
Band lengths:
246-1094
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]