DreINT0041232 @ danRer10
Intron Retention
Gene
ENSDARG00000069748 | capn5b
Description
calpain 5b [Source:ZFIN;Acc:ZDB-GENE-091116-29]
Coordinates
chr21:22172853-22173707:+
Coord C1 exon
chr21:22172853-22172975
Coord A exon
chr21:22172976-22173510
Coord C2 exon
chr21:22173511-22173707
Length
535 bp
Sequences
Splice sites
5' ss Seq
AGGGTACAG
5' ss Score
3.14
3' ss Seq
AGCCTCTTTGGTACCACCAGGTG
3' ss Score
6.33
Exon sequences
Seq C1 exon
TATGTTTTTGATGTGAGAAAAGTGGAAGATGAGGTGCTGATCTGCCTGCAGCAAAAGGAACGCAGAGCTACTCCAAAGGAGGGCAAAGGAGAGAATCTGGCCATTGGATTTGATATCCATAGG
Seq A exon
GTACAGAATTACATGCACACGGAAATATCATATTACAAAGCTTCACATTTGAATGCTAAAATATGTATGGTATAGAATTGTATGACATCTTGTTTCTGATATAGAATAAAATGTACTTATGATTTTTCATTTAAGACTTATTTCTTTAGAATGAACTTACAAATGCAAAATATAAACAACTTACAAATCAGAATGAATTAATTTAGATTCATAATCTCTGAGAAAAAAGTAAGAATTTGAGTTTATGAAGTCAAAATTATGAGAGAGCCTATATACACTTAGTTTAATTCTTTTAAACTCCAAATTGCATGAAAATAAAATCCAGATAACTCAGGATGTAACCTCAGAATTGTGAGAGAGCCTATAAACTCACAATTCTGAGAAAAATAGTCATAATCTTTGAGATATAAACTCAGCATTTAAAAGTCACAATTGTGTCAATGAGATATGCAGTCTCAACTTGCATTATCGAGTCTGCATCCAGATACTATTGAATTTTTGCCCTATTTTGACCAAGCCTCTTTGGTACCACCAG
Seq C2 exon
GTGGAGTTGAACAGAAAGTACAGAATGCACTCGGCGCAGCAGAAGGTCGCAGGGTCCATCTACATCAACTCTCGCTGCGTTTTCCTCCGGAAAGAGCTAAAGGAGGGCCGTTACGTCATCATCCCCACAACATTTGACCCCGGTCAGCAAGGAGAGTTCCTGCTCAGAGTCTTCACTGATGTGCCTTCAGACTGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000069748:ENSDART00000101732:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.024 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0106717=Calpain_III=FE(27.8=100)
A:
NA
C2:
PF0106717=Calpain_III=FE(45.1=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:
TGTTTTTGATGTGAGAAAAGTGGA
R:
TTGCAGTCTGAAGGCACATCA
Band lengths:
318-853
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]