DreINT0040139 @ danRer10
Intron Retention
Gene
ENSDARG00000099045 | cacnb2a
Description
calcium channel, voltage-dependent, beta 2a [Source:ZFIN;Acc:ZDB-GENE-080808-7]
Coordinates
chr7:71626477-71626911:-
Coord C1 exon
chr7:71626789-71626911
Coord A exon
chr7:71626614-71626788
Coord C2 exon
chr7:71626477-71626613
Length
175 bp
Sequences
Splice sites
5' ss Seq
GAAGTATGT
5' ss Score
6.97
3' ss Seq
CTTTGTGTGTTTAATGGCAGAAA
3' ss Score
7.11
Exon sequences
Seq C1 exon
AGTAAACCAGTGGCGTTTGCAGTGCGCACTAATGTTGGCTACAGTGCTTCTTCTGAAGATGACGTCCCCGTGCCTGGAACGGGAATCTCATTTGATCCTAAAGATTTCCTTCATGTTAAAGAA
Seq A exon
GTATGTATTTACATGTACAGCACACACGTCCATATCATATAACATTTTCACCTACAGTTCAATAAATGTTTAAAGTTATTCATATGGGCCTTAAATGTAGAATGAAATGTTTCTCTGTGTGTGTTGTGCTCTTATAAAACTCGACCACTTGTAACCTTTGTGTGTTTAATGGCAG
Seq C2 exon
AAATTTAATAACGACTGGTGGATCGGCCGCTTGGTGAAGGAAGGCTGCGACATCGGTTTCATCCCAAGTCCAGTGAAGCTGGAAAGCAGTCGCCTTCGCCAGGAGCAGCGCGCAAAACAAGGACGCTTTTACTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000099045:ENSDART00000168754:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.268 A=NA C2=0.338
Domain overlap (PFAM):
C1:
PF120523=VGCC_beta4Aa_N=PD(2.4=2.4),PF0001823=SH3_1=PU(52.9=65.9)
A:
NA
C2:
PF0001823=SH3_1=PD(43.1=47.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TAAACCAGTGGCGTTTGCAGT
R:
AAAAGCGTCCTTGTTTTGCGC
Band lengths:
251-426
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]