RnoINT0028224 @ rn6
Intron Retention
Gene
ENSRNOG00000004518 | Cacnb1
Description
calcium voltage-gated channel auxiliary subunit beta 1 [Source:RGD Symbol;Acc:68382]
Coordinates
chr10:85965030-85965824:-
Coord C1 exon
chr10:85965702-85965824
Coord A exon
chr10:85965167-85965701
Coord C2 exon
chr10:85965030-85965166
Length
535 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGC
5' ss Score
6.32
3' ss Seq
TCTTGGTCTCTTGTTCACAGAAA
3' ss Score
8.71
Exon sequences
Seq C1 exon
ACCAAACCAGTGGCCTTTGCTGTTCGGACAAATGTTGGCTACAATCCGTCTCCAGGAGATGAGGTGCCAGTGCAGGGAGTGGCCATCACCTTTGAGCCCAAGGACTTCCTGCACATCAAGGAG
Seq A exon
GTGGGCTGAACTCCTGGCACCTGGAATGGGGCGAGGGTGGGACATTAAAGGTGTAGGAGGGGTGTCAGGAGAGGGGGATACCTGGAAGTCTAGTGGGAAAAACCTGCTGAGCTGTGCGCATCTGGACTGAGTCTGCTGTGCACCTTCAGGCAAACCTCTTCACCTCTCTGAGCCCAGTTAATTTTCATTGCTTGGTAATGTCTAAGTCACAGAGATGCTGAGAGGGCTTGTTGTGAGCCCCGTGATAGAGCGGTGGTGTGCCTGGTGCACGCGTCTGCTTTCACTCCTACCCACGGCATGAATCTCGGAGGCGGGAGTTTTCTTCCCTTCTCTCTAACAGAGGGTGGTCCATGCTCACACAGAGTCCTGGTCTGGTTGATGTCTTGGAAATTGGGAGGATCTTATCAGAGGCTGAAGCCAGGGGTGGGGCTTCTTTGAGGGAGCCATTTACTGGCTGGGTCCGAAGCCTGGAGGTCTCCCTAGAAGGTAACTATGGCTCCCTCCTCCAGTTTCCCTCTTGGTCTCTTGTTCACAG
Seq C2 exon
AAATACAATAATGACTGGTGGATCGGGAGGCTGGTGAAGGAAGGCTGTGAGGTTGGTTTCATCCCCAGCCCTGTCAAACTGGACAGCCTTCGCCTGCTGCAGGAACAGACGCTGCGCCAAAACCGCCTCAGCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004518:ENSRNOT00000006098:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=NA C2=0.196
Domain overlap (PFAM):
C1:
PF120523=VGCC_beta4Aa_N=PD(2.4=2.4),PF0001823=SH3_1=PU(44.2=46.3)
A:
NA
C2:
PF0001823=SH3_1=PD(51.2=47.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAACCAGTGGCCTTTGCTGTT
R:
CTGGAGCTGAGGCGGTTTTG
Band lengths:
257-792
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]