DreINT0040158 @ danRer10
Intron Retention
Gene
ENSDARG00000001881 | cacnb3a
Description
calcium channel, voltage-dependent, beta 3a [Source:ZFIN;Acc:ZDB-GENE-060221-2]
Coordinates
chr23:14403101-14403454:+
Coord C1 exon
chr23:14403101-14403252
Coord A exon
chr23:14403253-14403358
Coord C2 exon
chr23:14403359-14403454
Length
106 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TTCTTCCTCTGCTTTGACAGGTC
3' ss Score
10.13
Exon sequences
Seq C1 exon
CGGAAGTACAGAGTGAGATTGAGAGAATATTTGAGTTGGCCAAAACCCTTCAGCTGGTGATTCTGGATGCAGACACCATTAACCATCCAGCACAGCTAGCTAAAACCTCACTAGCACCTATTATTGTATATGTAAAGGTCACGTCTCCAAAG
Seq A exon
GTGAGGCAAGAAATATGCTGCTAGTCTTTTCAAGAATATCTCAAAATACTTAATTTCTAAAGCTAACCTACATTCTTTGATACTCATTCTTCCTCTGCTTTGACAG
Seq C2 exon
GTCCTACAGCGGTTGATAAAATCCAGGGGTAAATCACAGAGCAAACACCTCAATGTTCAGATGATGGCAGCAGATAAATTGACTCAGTGTCCCCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000001881:ENSDART00000087280:11
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=0.031
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=FE(28.1=100)
A:
NA
C2:
PF0062516=Guanylate_kin=FE(17.4=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:
CGGAAGTACAGAGTGAGATTGAGA
R:
ACACTGAGTCAATTTATCTGCTGC
Band lengths:
242-348
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]