DreINT0005733 @ danRer10
Intron Retention
Gene
ENSDARG00000045199 | CAPN1 (1 of 2)
Description
calpain 1, (mu/I) large subunit [Source:HGNC Symbol;Acc:HGNC:1476]
Coordinates
chr7:6575536-6576224:-
Coord C1 exon
chr7:6576091-6576224
Coord A exon
chr7:6575705-6576090
Coord C2 exon
chr7:6575536-6575704
Length
386 bp
Sequences
Splice sites
5' ss Seq
CAAGTACGA
5' ss Score
5.39
3' ss Seq
ACTTAGTCTGTCTTCCTCAGGCT
3' ss Score
7.5
Exon sequences
Seq C1 exon
TTCTGGCAGTTTGGTGAATGGGTGGACGTGGTGATCGACGACCGGCTGCCGACGAAGGATGGCAAACTGTTATTCGTGCACTCGGCGGAGGGTGGAGAGTTCTGGAGTGCTCTGCTGGAGAAGGCCTACGCCAA
Seq A exon
GTACGACAGTCTCGAATTAAATTCACCCAAAAAAATGTAATGCTGATATTAATTACTCACCCACAGGTCAGGGTGCGCACACAAGTTTGTATTGCCATTTGAATACTAAATGTAGTAGTTCTGACTGGGATCGTTTGACTGATTACACGAGCTGGATTCACTGGTGTGAATCAGATGCGCTAGAAATGCAGCACACTGAGGACATCTGCTGGTTACAAGGGGGTAATGCAAAAGCGCAAAATGAAAATATACATTATCATTCGTCAGTGTGGACACACACAAATATGTTTATCATTACATTTAGAATATTATGTTTAGTGTGAACAGGTCTTAATATTTTCAGTCTCATACATCTAAAACTCATGCACTTAGTCTGTCTTCCTCAG
Seq C2 exon
GCTGAACGGCTGTTACGAGGCTCTGTCTGGAGGCAGCACGTGTGAAGGCTTCGAGGATTTCACCGGTGGAGTGACAGAGATGTACGAGTTAAAGAAAGCTCCCGCTGACCTCTTCAGCATTATTGGCCGCGCCATCGAGAGAGGCTCGCTGCTGGGCTGCTCTATTGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045199:ENSDART00000113658:5
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(14.7=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(18.7=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:
TCTGGCAGTTTGGTGAATGGG
R:
ATCAATAGAGCAGCCCAGCAG
Band lengths:
302-688
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]