DreINT0040168 @ danRer10
Intron Retention
Gene
ENSDARG00000001881 | cacnb3a
Description
calcium channel, voltage-dependent, beta 3a [Source:ZFIN;Acc:ZDB-GENE-060221-2]
Coordinates
chr23:14400544-14400771:+
Coord C1 exon
chr23:14400544-14400624
Coord A exon
chr23:14400625-14400712
Coord C2 exon
chr23:14400713-14400771
Length
88 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
CGTGTCATGTCTGTTGACAGGTG
3' ss Score
9.74
Exon sequences
Seq C1 exon
ACTGAACACATTCCTCCATATGATGTGGTGCCATCCATGAGGCCTGTGGTTCTGGTAGGACCGTCACTAAAGGGATATGAG
Seq A exon
GTGAGCGTTAGAGATCATACAGTATATACAGTACAAGCCTCTGAAACAATCTGAAATATGTTTTCTCACGTGTCATGTCTGTTGACAG
Seq C2 exon
GTGACAGACATGATGCAGAAAGCTCTGTTTGACTTTCTCAAACATCGCTTTGATGGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000001881:ENSDART00000087280:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.074 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=PU(8.4=55.6)
A:
NA
C2:
PF0062516=Guanylate_kin=FE(10.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTGAACACATTCCTCCATATGATGT
R:
CATCAAAGCGATGTTTGAGAAAGTCA
Band lengths:
136-224
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]