DreINT0040182 @ danRer10
Intron Retention
Gene
ENSDARG00000009738 | cacnb4a
Description
calcium channel, voltage-dependent, beta 4a subunit [Source:ZFIN;Acc:ZDB-GENE-080320-2]
Coordinates
chr9:38314450-38315133:+
Coord C1 exon
chr9:38314450-38314601
Coord A exon
chr9:38314602-38315037
Coord C2 exon
chr9:38315038-38315133
Length
436 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACA
5' ss Score
8.92
3' ss Seq
TTTGGTGTGTTTGCTTACAGGTA
3' ss Score
10.07
Exon sequences
Seq C1 exon
CGGAGGTTCAGAGTGAGATCGAGCGGATCTTTGAATTGGCCAGATCCCTTCAGCTGGTTGTTCTCGATGCCGACACGATCAACCATCCTGCCCAGCTCATCAAGACTTCTTTAGCTCCCATTATTGTCCATGTTAAAGTGTCTTCTCCCAAG
Seq A exon
GTAACAAAGCTCATTAATCGAAGAAATATTTTAACATCCCATTTTGCATTTCTTTAAAGGAACACTGCAGTTTTTTTAGAAATAGGTTAATTTTACATCTCCCCTAGAGTTAAACAGTTGAATTTTACCATTTTTTTTAACCATTAAGCTGATCTCTGAGTCTGGTGAGGGCACTTTTAGCTTCATTAAGCTGAAATGAGAGTACAGTTTCAAGCCTTATTGACATGGAAAAGAACATGCTAATGGTCTAATCCGATTTAATGATTTATGCTAAGCTAAAAGTGCTCCTATCAGACACGGAGATTGTCCAAATGGATTCAAAAATAGTCAAACTTAACAGTTTTACCTCTCTGTGACATGTAAAATTAGCCTATTTCCAAAAAAAAGTGGGGTGTTGCTTGAAGATCTTTAGTGTTTTTGGTGTGTTTGCTTACAG
Seq C2 exon
GTATTACAACGGCTGATTAAATCAAGAGGAAAGTCTCAGAGCAAGCATTTAAATGTACAACTGGTGGCAGCAGACAAATTAGCTCAGTGCCCTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000009738:ENSDART00000123749:10
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:
PF0062516=Guanylate_kin=FE(27.6=100)
A:
NA
C2:
PF0062516=Guanylate_kin=FE(17.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGAGGTTCAGAGTGAGATCG
R:
GGAGGGCACTGAGCTAATTTGT
Band lengths:
247-683
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]