DreINT0041186 @ danRer10
Intron Retention
Gene
ENSDARG00000041864 | capn3a
Description
calpain 3a, (p94) [Source:ZFIN;Acc:ZDB-GENE-040912-97]
Coordinates
chr17:45352657-45352963:+
Coord C1 exon
chr17:45352657-45352770
Coord A exon
chr17:45352771-45352905
Coord C2 exon
chr17:45352906-45352963
Length
135 bp
Sequences
Splice sites
5' ss Seq
AGTGTGAGT
5' ss Score
6.96
3' ss Seq
TTTCTTCTTGTATTTTGCAGAAC
3' ss Score
11.72
Exon sequences
Seq C1 exon
CCTTCTCCGGCTTCAACTGGGGAGGAGAGCGAAGAGGACCAACAGTTCCTGTCCATTTTCCAGCACATCGCGGGGGACGTGAGTACTGGGGAGGCAGTGAGCGCTTGGGGGAGT
Seq A exon
GTGAGTATGGTGGTGGGGTGGGACCGGTAATTGACCATGCCAGTGGTAACAGTGGTAACTGTTCAGATCCTATCAGATCCACTTTGTCGTAACAAATACAACACCTGCCTTTCTGTTTCTTCTTGTATTTTGCAG
Seq C2 exon
AACATGGAGGTCTCTGCCAACGAGCTTAAAGATGTCTTGAACAAGGTGGTGTCTAAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000041864:ENSDART00000148667:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.289 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:
CCTTCTCCGGCTTCAACTGG
R:
TTAGACACCACCTTGTTCAAGACA
Band lengths:
170-305
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]