DreINT0041118 @ danRer10
Intron Retention
Gene
ENSDARG00000052748 | capn1b
Description
calpain 1, (mu/I) large subunit b [Source:ZFIN;Acc:ZDB-GENE-060503-491]
Coordinates
chr22:26279119-26279408:-
Coord C1 exon
chr22:26279295-26279408
Coord A exon
chr22:26279205-26279294
Coord C2 exon
chr22:26279119-26279204
Length
90 bp
Sequences
Splice sites
5' ss Seq
TCAGTACGT
5' ss Score
5.95
3' ss Seq
CAATATCTCATCTCCAACAGAGT
3' ss Score
5.74
Exon sequences
Seq C1 exon
GTTTTAAACTCAATAACAAGCTACATCAGATCCTGGTGGCCCGATATTCAGACGGAGATGTGATTGACTTCGACAACTTTGTCTGCTGCCTGGTTAAACTGGAGGCCATGTTCA
Seq A exon
GTACGTCATTTACATTATATTCTACTTTTGTGTTAATATATTTGCTATTATCCCACTGAAACATCTGAGTCAATATCTCATCTCCAACAG
Seq C2 exon
AGTCTTTCAAAGAGCTGGAGAAAGAGGGCTCAGGTGTCGCAGAGCTCAATATTAGCGAGGTCAGTCATTTCTTACTTTCTAAGTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000052748:ENSDART00000105099:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TACATCAGATCCTGGTGGCCC
R:
AGTAAGAAATGACTGACCTCGCT
Band lengths:
169-259
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]