DreINT0041268 @ danRer10
Intron Retention
Gene
ENSDARG00000012341 | capn9
Description
calpain 9 [Source:ZFIN;Acc:ZDB-GENE-010724-2]
Coordinates
chr1:53236861-53238440:-
Coord C1 exon
chr1:53238272-53238440
Coord A exon
chr1:53236945-53238271
Coord C2 exon
chr1:53236861-53236944
Length
1327 bp
Sequences
Splice sites
5' ss Seq
GACGTAAGC
5' ss Score
7.1
3' ss Seq
TTGTGTTTCCGTTTCACTAGATC
3' ss Score
8.77
Exon sequences
Seq C1 exon
GCTGAACGGCAGCTATGAAGCCCTGAAAGGTGGAAGCACAATGGAGGCCATGGAGGACTTTACTGGAGGTGTGGGTGAGATGTACGAGACGAAAAACGGACCCAACAACCTCTTCCTCATCCTCAAGAAAGCCATAGAGAGGGGGTCCATGCTTGGCTGCTCCATCGAC
Seq A exon
GTAAGCAAGACCGTGTTTTATTCACTGTGAGATTAGCAGCGCATTCCAGCACATAGATAGATGGACGGACGGACGGACGGACGGACGGACGGACGGACGGACGGACGGACGGACGGACGGACGGACGGACGGACGGACGGACGGACGGACGGACGGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGATAGATAGATAGATGAATGGATGGATAGAACGATGGATCAATAGATAGGATGATAAATTAAATTAAATATCAAAGGATGGATGGAACGATAGATCGATAAAAAAGATGGATATATAGATAGATGGATGGATGGATAGATGGATGGACTGAACAATGAATGAATAGAACTATGGATGGATGGATGGGCAGATAGATAGATGGATGGATAAATAGAACTATGGATGGATGGATAGATGGATAAATAAGATGGATAGATAAATGCATGGATAGATGGATGATAGATCAATGGATGGATAAATAGAACTATGGATGGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGGTGGATGAATGGATGGATAGAACGATGGATCGATAGATAGGATGATAAATGAAATTAAATAATTGATGGATGGATGGAACGATAGATGGATAAAAAAGATGGATGGATAGATAGATAAATGGATGGATGGATGGATAGATGGATGGATTGAACAATGAATGAATAGAACTATGGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGACAGACAGACAGACAGACAGACGGACGGACGGACGGACGGACGGACGGACAGACAAATAGATAGATGGATGGATGGATGGATGGATAAAATGATGGATAGAATAAAATATGTAACAGCCAATAGCATTTGTTTTTATCACAGCTCTGTCAGTGAGAGGGGTTAAGATCAAGCACATACAGGAATAGTGTGTTGAAGGAGGTGGGGCTTGTCAGATACTAGAGAGCATTTGTTTGTTCAGAAGATTTGATGAGAGACCAAAGTATGATGTGACGTTACAAAAAAATAGTATCCATTTGGACGGAAGTGAGAAATTTGGATGTTTAAATCTTCTAAATGCTCATTTTGTCACTGTTTTGGAGCAAACTAGCTAATAGCTATGCTTAAGTCTAAGTGATACTAACATCGAAGAAACATTTAAGATGTTTGTGTTTCCGTTTCACTAG
Seq C2 exon
ATCACTAGTTCTGCTGAATCTGAAGCCCAAACCTCTACTGGTCTGGTGAAAGGCCACGCTTACTCCGTCACTGGAGTGGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000012341:ENSDART00000007732:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.035 A=NA C2=0.036
Domain overlap (PFAM):
C1:
PF0064816=Peptidase_C2=FE(18.9=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(9.1=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:
GCTATGAAGCCCTGAAAGGTGG
R:
GAGTAAGCGTGGCCTTTCACC
Band lengths:
223-1550
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]