DreINT0041255 @ danRer10
Intron Retention
Gene
ENSDARG00000012341 | capn9
Description
calpain 9 [Source:ZFIN;Acc:ZDB-GENE-010724-2]
Coordinates
chr1:53232313-53233424:-
Coord C1 exon
chr1:53233267-53233424
Coord A exon
chr1:53232522-53233266
Coord C2 exon
chr1:53232313-53232521
Length
745 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
GTCTCTTTGCTCACAAACAGGCT
3' ss Score
7.86
Exon sequences
Seq C1 exon
ACACATTCTGGACAAACCCCCAGTTTAAGCTTCATCTGGAAAATCCGGATGATGGTGATAAGCTGTGCAGCGTCATTGTGGCCCTGATGCAAAAGAACCGCCGACGACTAAGAAAAGAGGGGCTTGACCTGGAGACCATTGGGTTTGCTATTTATGAG
Seq A exon
GTGAGAGAGAGATATCAAGCAACAGACAGAGCTGTATTTAAAGGGTTATAGGAATGATTAGTTACTTAAGACAAGTCATTTCAATCATCTGAGACCTTCATTCATCTACAAACCACAAGTAAAGATATTTTAGGTTAAATCGGAGAGCTCCCTCATCCTCCATTTAGCAAATCAGAATTATACTTACATGTTTAAAGTCCAGAAAAGGAACAAAGACTGCACAGACTACAAACTTTAGTCAAAGAGAGCTGCATGAAGTCTTTTGAGTGCCAAAAAAACTGTGAAAATTTTGTTCGCAAATGAGTTTGTTTGCCGATGTTTTCCTCATCAGATCAGGATGCGATGCTTGCTTGTTGTGCTGCTGATTCTAATGGAAATAAGTTGTATTAACCATAATAAACATGTTTAATACATTTTTTTTTTTAAATGGTGCACAAAAACGTACTTGGAGCTTTGTATGATTAAAGTTGAACCACTTGAAGACATGTAGTGTTTTGACAATGTTTTTGATTCCTTTACTGGACTTTGAACATCCCTTGCTGTCTATGGAGGATGAGAGAGCTCTCGGATTTCATCTAAAATATCTTAATTTGTTTTGAGTATGAACAAAAGTCTTGGGGATTTGGAATGAAATGAGGGTGATGAATTATTAGCAGAGTTTTCATTTTTGGGTGAACTAACCCTTCAAATAAGGAAGGACATGAGTTTGCAGAACGTCACGCAGTGTCTCTTTGCTCACAAACAG
Seq C2 exon
GCTCCCGATGATCAAGACCACCAGGGCAAAGATTTTTTCCGCTATAATCCCTCTAAAGCACGGAGCCGTACTTATATCAACGTGAGGGAGGTTTCCGAGCGCTTCAGACTGCCGCCTGGAAACTACCTGCTGGTGCCCACCACCTTTCAGCCGCACAAAGAGGCTGATTTCCTCATCCGCCTCTTCTCTGAGAAGAAAGCTGGAGCCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000012341:ENSDART00000007732:10
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=0.086
Domain overlap (PFAM):
C1:
PF0106717=Calpain_III=FE(35.6=100)
A:
NA
C2:
PF0106717=Calpain_III=PD(46.6=97.1)
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:
ACACATTCTGGACAAACCCCC
R:
CAGAGAAGAGGCGGATGAGGA
Band lengths:
348-1093
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]