DreINT0005747 @ danRer10
Intron Retention
Gene
ENSDARG00000055338 | CAPN1 (2 of 2)
Description
calpain 1, (mu/I) large subunit [Source:HGNC Symbol;Acc:HGNC:1476]
Coordinates
chr21:27445888-27446177:-
Coord C1 exon
chr21:27446099-27446177
Coord A exon
chr21:27446005-27446098
Coord C2 exon
chr21:27445888-27446004
Length
94 bp
Sequences
Splice sites
5' ss Seq
CAGGTATCT
5' ss Score
7.33
3' ss Seq
GAATTGAATTCTTTTGTAAGGCT
3' ss Score
1.34
Exon sequences
Seq C1 exon
GCAGTCTTTAGGGAGTTTGACATAGACAAGTCTGGCACAATGAGCTCTTATGAAATGCGTCTCGCTTTAGAATCAGCAG
Seq A exon
GTATCTTTCACTTAATGCAACACTATTTATTTATTTATTTATTTATTGTTACTGTGATAAATTATGTTTCTAAAGAATTGAATTCTTTTGTAAG
Seq C2 exon
GCTTTAAGTTGACCAACAACCTGTTCCAGCTGATAATCCTGCGCTATGCAAAGTCAGACCTCAATGTGGACTTTGATAACTTTGTGGCCTGTCTGATCCGCCTTGAGACTATGTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055338:ENSDART00000077657:18
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:
PF134991=EF-hand_7=FE(29.5=100)
A:
NA
C2:
PF134991=EF-hand_7=FE(44.3=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:
TAGACAAGTCTGGCACAATGAGC
R:
AGTCTCAAGGCGGATCAGACA
Band lengths:
167-261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]