DreINT0005723 @ danRer10
Intron Retention
Gene
ENSDARG00000045199 | CAPN1 (1 of 2)
Description
calpain 1, (mu/I) large subunit [Source:HGNC Symbol;Acc:HGNC:1476]
Coordinates
chr7:6557775-6557983:-
Coord C1 exon
chr7:6557918-6557983
Coord A exon
chr7:6557833-6557917
Coord C2 exon
chr7:6557775-6557832
Length
85 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGA
5' ss Score
7.4
3' ss Seq
TGCGTAAATGTGTTTTCTAGGAC
3' ss Score
8.62
Exon sequences
Seq C1 exon
CAACGTCTTGATGAGAGTCAGATTGACGCTGGTTTTAAGAGTCTGTTCAGACAGCTGGCTGGAGCG
Seq A exon
GTGAGAGAAACACCTCTTGAATACAGATACTGAATACTATGATGCTTTTATATGTAAAGCACTTGTGCGTAAATGTGTTTTCTAG
Seq C2 exon
GACATGGAGATCAGTGTGACGGAGCTACAGACGATCCTGAACAGAATCATCGCCAAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045199:ENSDART00000113658:15
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:
PF138331=EF-hand_8=PU(0.1=0.0)
A:
NA
C2:
PF138331=EF-hand_8=FE(31.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAACGTCTTGATGAGAGTCAGA
R:
TGGCGATGATTCTGTTCAGGA
Band lengths:
121-206
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]