RnoINT0028220 @ rn6
Intron Retention
Gene
ENSRNOG00000004518 | Cacnb1
Description
calcium voltage-gated channel auxiliary subunit beta 1 [Source:RGD Symbol;Acc:68382]
Coordinates
chr10:85957751-85958436:-
Coord C1 exon
chr10:85958341-85958436
Coord A exon
chr10:85957937-85958340
Coord C2 exon
chr10:85957751-85957936
Length
404 bp
Sequences
Splice sites
5' ss Seq
CCCGTGAGT
5' ss Score
8.4
3' ss Seq
CCCTAACCCCACCTCCACAGGAA
3' ss Score
7.23
Exon sequences
Seq C1 exon
GTACTGCAGAGGCTCATCAAATCCCGAGGGAAGTCTCAATCCAAACACCTCAATGTCCAAATAGCAGCCTCGGAGAAGCTGGCACAGTGTCCCCCC
Seq A exon
GTGAGTGCTCAGACCCAGGAGAGGGAAGGGAAGGTGCCCTTTGGGGTTCTCNNNNNNTNNNNNNNNNNNNNNGNAGACAGCACGTGGGACAGGTCTTTTGGTATAAACTGGTCCTTCTTAAACCGGCCCTTCGGTAAAGAGGGATGGCTGGTTTGCCAAATGGTTGGCCACGTCTCAACTTCTTGCAGAGTCGTGCCCTGATTTCCCTATCCCTAGAATGACAGGGAGTTGGGTTGAGTTCGGTCACTTGTAGGTCTGAGCGTCCTTTTCTTGCTCCACATCCAGAGGCCTTTTAACCTTGTCCTTCAACCCCCTTGACTCCACCCACTGCACCCAGGTCACACCTTCAACCCTTGGCCACGCCCCCGCTCATCCCAGCCCCGCCCCTAACCCCACCTCCACAG
Seq C2 exon
GAAATGTTTGACATAATCCTGGACGAGAACCAATTGGAAGATGCCTGCGAGCACCTGGCGGAGTACTTGGAAGCCTACTGGAAGGCCACACACCCGCCTAGCAGCACGCCACCCAATCCGCTGCTGAACCGCACCATGGCTACCGCCGCTCTGGCTGCCAGCCCTGCCCCCGTCTCCAACCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004518:ENSRNOT00000006098:12
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=0.484
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=FE(17.1=100)
A:
NA
C2:
PF0062516=Guanylate_kin=PD(13.8=40.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCAGAGGCTCATCAAATCCC
R:
CTGGAGGTTGGAGACGGGG
Band lengths:
278-682
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]