DreINT0041208 @ danRer10
Intron Retention
Gene
ENSDARG00000043035 | capn3b
Description
calpain 3b [Source:ZFIN;Acc:ZDB-GENE-041001-149]
Coordinates
chr20:26094897-26095251:-
Coord C1 exon
chr20:26095133-26095251
Coord A exon
chr20:26095031-26095132
Coord C2 exon
chr20:26094897-26095030
Length
102 bp
Sequences
Splice sites
5' ss Seq
CAGGTATAT
5' ss Score
7.88
3' ss Seq
ACAATTTTGAATGTTTCTAGTTT
3' ss Score
5.27
Exon sequences
Seq C1 exon
GAGACTGTTGGCTGTTGGCTGCCATAGCTTGCCTGACCCTGAATGATGTCATCCTGAAGAGGGTTGTTCCTCATGACCAAAGCTTCACTGAAAACTATGCTGGCATTTTCCATTTCCAG
Seq A exon
GTATATGGGCATCAAAACTGTCATGCATTTCATATTTGACACATGAACCCTACACTTGGATGAATGAAGCACAAGCACAAGCACAATTTTGAATGTTTCTAG
Seq C2 exon
TTTTGGCGCTATGGTGAGTGGGTGGATGTGGTTATTGACGATCGACTTCCCACATACAAAAACAAGCTGGTCTTTACCAGGTCTGGACAGAATAATGAATTTTGGAGTGCTCTCATGGAAAAGGCATATGCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000043035:ENSDART00000136518:3
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(13.2=100)
A:
NA
C2:
PF0064816=Peptidase_C2=FE(14.9=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:
GAGACTGTTGGCTGTTGGCTG
R:
TGCCTTTTCCATGAGAGCACT
Band lengths:
245-347
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]