DreINT0005755 @ danRer10
Intron Retention
Gene
ENSDARG00000055338 | CAPN1 (2 of 2)
Description
calpain 1, (mu/I) large subunit [Source:HGNC Symbol;Acc:HGNC:1476]
Coordinates
chr21:27457592-27457836:-
Coord C1 exon
chr21:27457751-27457836
Coord A exon
chr21:27457667-27457750
Coord C2 exon
chr21:27457592-27457666
Length
84 bp
Sequences
Splice sites
5' ss Seq
TGAGTGAGA
5' ss Score
1.44
3' ss Seq
TTCACCACGTGTTAATTCAGGTC
3' ss Score
5.73
Exon sequences
Seq C1 exon
GTGGAGTACAGACGAAGCCAGACCAAGCTGCTGCGCATCAGAAACCCTTGGGGAGAGGTGGAGTGGACGGGACCCTGGAGTGATGA
Seq A exon
GTGAGAATCATGTGAAGATGAAAAATGATTCATCATTTCATGTTGAATAGCTTTGTTGTATGATTTCACCACGTGTTAATTCAG
Seq C2 exon
GTCAAAGGAATGGCGTGAAATCGATGCATCTGTGAGGTCTCGTCTGCACAACTGTCAAGAAGATGGCGAATTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055338:ENSDART00000077657:7
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(9.3=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(8.3=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:
GTGGAGTACAGACGAAGCCAG
R:
AAATTCGCCATCTTCTTGACAGT
Band lengths:
159-243
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]