DreINT0040169 @ danRer10
Intron Retention
Gene
ENSDARG00000001881 | cacnb3a
Description
calcium channel, voltage-dependent, beta 3a [Source:ZFIN;Acc:ZDB-GENE-060221-2]
Coordinates
chr23:14400713-14402800:+
Coord C1 exon
chr23:14400713-14400771
Coord A exon
chr23:14400772-14402699
Coord C2 exon
chr23:14402700-14402800
Length
1928 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGT
5' ss Score
11.45
3' ss Seq
ATATTTTGTTATGCTGACAGGAT
3' ss Score
6
Exon sequences
Seq C1 exon
GTGACAGACATGATGCAGAAAGCTCTGTTTGACTTTCTCAAACATCGCTTTGATGGACG
Seq A exon
GTGAGTTTTAAAAGACACATTTCTTGTAAGATATGATGAATGTTGCTATGTTCTTTACTCGCACGTATCTATTTACTGTGAAAAGTGATTGTGGAGAGGTCTGTCAACCTCAAACAAGGTTTTAAAATATCAAAAGTTGTACATAAAACTCCATGATTATAATCAATGCTTTCTCTAAGCTATTCCATCGTTTTGTGCAAGACACAGACCCATATTAAATAGTTTAATATATGGTGGAGGTGGGTTTTCATTGACCATTAATAGACATGCTTCACCCAAAAATGAAGCAGGAGTCATTATTCTTTTTAGCAAAAAGAGGATTCGTCCTGCCTTTTTCATGTAATGTCAGTTAATGACAACTGAGCTTTTAAAGAACATACAAAGGTTTCTCAGAACAATCCTATTAAACTTTGTATGCCAGCAAGCATTTTTTGTTTCAATTAAATGTAAAAGACATCTAAACATGGGCATTTTGGCTAAAAACAAGGCTAAAGTTGAGATGTCTGTATAATAGACGTCCAACACTAGTCCAAAAATAGACCGTTCATCTACTACACAGGATGACTATTTTTTGACATCTATTATATTTTTACTCTCAGCCCAAATTCAGCCTTTGTTTTGCCAAGTCATCGATATTAAACACAAAATTGCTTGGAGGAATATTAGTTTTCTGAGGGTAAACTATAGCTTGTTTGTTTTTTGGTTGGTCTCTGTGCACATTCGTGAGACTGATTGTGCCATAGTTCACTCTGACTCTGAAAAAAAAAAAAACAGGTTAGCTGATGTTTGACAGCACTGGTAATATCGGAATCACTTCTTAAATTTATTAAATGTGTACATTTTAAACCCTATTTAATAATTTCACTTTTGATTAAGTGACAATCAGGTATTAATTGCTTTTATTGACACCTCAAACTCACAGTCTCCTCATTTTTGTCTAGCTCTTCTTTCTGCTGAGGATAAGTGGTTTAACATTGGACACAGTCACAGTGTGTAGTTTATTTTAATTGGGCAAGAGTTTCTCTCACTAGCTGCACACATATGTGCGCAATAATTTAATGTGTGTTTTTGCTAAGTAAAAATACAAACAATATTTGCTAAATATTGTGTCTGACAAGAAAATGTGCTGATATTACGCTATTTTATTTGGATTTTAGCAAATACAAATATGACACTGTTGATTGTAACTATGGTGATGGCCAAAACCATTACGCGAGCACCACACTGGTGATTCCTCAGCTTATCGGATGCTGTCTGAATCGACCTGCCATTAGATAAAATAGATAAACTTCTGCTGCTGATCTGTGATTACGCATATTCAGTTTTATATTTTACAGTAGTTTTTAGCAAAACTTAAAGATTAAAAAAAGAAAAAAAATCTGAATGACAGTGGGGGCAGTGGTTGGCTAAACATTTAACTTTCATAATCACACCAAACCTAGTATAACAAAGCATTTGGTTTTATGTATTATAATTCTTATTCAAATTCCATTGGAACTGCAGCCTTCGTGCACAAAGGCATTCAGTGAAGGTTGAAACTTTTCAATAAACAATACATTAATTGTATGACATGCATACATGTTCAGAAAACTTGGATAGTAGATTCAATACTTTTTTTTATTATTTGGCTTGACTGACCCAACCAGGGCTCAAACCAGCGACCCTCTTGCTGTGAGGTGACAGTGCTACACACTGAGCCACTGTGTCGCCTTTGGATAATACAATATGCATCCTATCGGATAATTCTGTGATACTGAATAATTTTTTAAATGCTTAATGATGGTCTGTATTCAATGTTATTTTATGGATGAGTTTGAATAAGACAAAATATTTGAAAAAATCCTTCCACAAAGGCTAAAAAATGACCAAATCTTTATTTTGGTGAACTCACTCCACTTAAGTGTACTAATATTTTGTTATGCTGACAG
Seq C2 exon
GATTTCAATAACCCGAGTAACTGCTGACCTTTCACTGGCCAAGAGATCAGTTCTCAACAAGAGACCCATCATGGAGAGGTCAAACACACGGACCAGTTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000001881:ENSDART00000087280:9
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=0.286
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=FE(10.7=100)
A:
NA
C2:
PF0062516=Guanylate_kin=FE(19.1=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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]