RnoINT0028235 @ rn6
Intron Retention
Gene
ENSRNOG00000018378 | Cacnb2
Description
calcium voltage-gated channel auxiliary subunit beta 2 [Source:RGD Symbol;Acc:67385]
Coordinates
chr17:81990547-81992444:+
Coord C1 exon
chr17:81990547-81990669
Coord A exon
chr17:81990670-81992307
Coord C2 exon
chr17:81992308-81992444
Length
1638 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGG
5' ss Score
6.38
3' ss Seq
ACTTTGGATTTTGTGTGTAGAAA
3' ss Score
5.36
Exon sequences
Seq C1 exon
ACAAAACCTGTTGCATTTGCAGTTCGGACCAATGTCAGGTACAGCGCAGCCCAGGAGGATGACGTCCCGGTGCCCGGCATGGCCATCTCATTCGAGGCAAAAGATTTTCTGCATGTTAAGGAA
Seq A exon
GTAAGGAACACGTGTTTCTTTCCGTGTGATTTCTCACCTTCAGCTCCCCCTTACTCAGTGCTGTGAATGGTTTAGTTCTAGCTGCCATGGTATAACACAGCTAAATCAGTAGCACAGAGCCTTTTCCGATATAAAGAAACTTTTAATGTGGAAAGGAGTCAGAGGCTCCTAGTAGGATTGCCAGGGCCCCTTTGGGCTTTGTGCCCCAGAAATTAGGAACTATTTTGCCAAGTGATCCATTTTTATGTGTGCCCTGCCTTTTATGTCTTGATGATTTACCTTGATTGACTATATGTGATTTTTTTCTGCTGTCTGATGTTGGAGTCATGTATAGAGAGTATTTTTTCTCCTTTTTTCTTTTCTTCTTCTTCTTTTCTTTTTTTAAATGAGACGAAATTTCATTCTGTGGCCTAGGTTGGCCTAGAATCTTTTATGTGGCCCAGGCTCTGAAACTCACCATAGCCCAGTCTGGCCTCAAATTTGCTACAATTCCCTATTCCCCACCCTCCCTGCACTTCATTCACCTGGGTGCTGGGATTCCAATTGTGCGCTGCTATGCCTGCCTCCCGGGACACCGGGGAGGCATCATTTCCACAGCAGAACGGAATGGTGGGAATTAGAGCAAGAGACAAAAAGCTGATGCCAAGAAAATGCCTGTTCCCCTAAGCAGACAAGGACAGTCTGTACATTGGAAAAATTCAGCAATCAGCCTTAATTACATTTTGTTTGGTGTCCACATGTCACATGCGTGCTCTGTCGGACATAATCATTCTTCCTAGAGTGCACATAGCTCTTTTTGGGGGAGGGGACGGGGGAATTTAGAGTTGGAGGCATTCCCACAGGGAGAGTGTGAAAATTAACTGGCCCATGCTGGTGCAGTGAAGGAGGCTAGTGAACTCACAATGCAGAACTCTTAGACAAAGGTGTGAGAGAGGACATGAGAAAGGGAAAGCAACGTATTCAGAAACCAAGGTGAGCATCCACAGGAACAAAGTTAGACTAAGACAGAGACTTTCCTTGATGCCAATATTTTGAGCGGGATCATTTTGTACTATGGAAAGAAAACCCATGAGCATTCTGCAAAATGCCTGAGAATAGATCCCGAAGTTACAAGATACATATCCACCTGCAAGAGACAAGCTGTGGGCATCCACATCAGGAAAACCACATGTGTATACTCTATTGTATGATTAAAAAACTGCAGAGGTGCATTTTACTGATACAGAATATTTCAAGAACATTTCAGTACCCCTCTCTCAATATTAATACTTCGAAGTAATCCAATTTCATAAGGGGAAGAGCTCTGCAAGGCTTCCTAGCTTCTGATTGTCTCTTGCTAGGCATATTCATCTTTGAATGTTGATCAATTATTACAGAGTTCAGCTGTAGCTGAAAGGCAGCACTGGAATGGGAAACACAAGGAAATGCAGTCTTTATTGGACTGCTATCAGGGCACACCAAACTGGGCACCCATTTCTTCTGAGCTGAACGCATAAACCCAAGGGCTCCTTGACATTTGGTCTTAGATGCATGCTTCTAACTGTCATGTTTTCCTCCCATGAGAACAGCTGATGTAGAAGTCAATTCTGATCTTTAAGCCTCCTGTACCGATTCTAATACTTTGGATTTTGTGTGTAG
Seq C2 exon
AAATTTAATAATGACTGGTGGATAGGACGGCTGGTTAAAGAAGGCTGTGAAATCGGATTTATTCCAAGCCCGGTCAAACTAGAGAACATGAGGCTACAGCATGAACAGAGAGCCAAGCAAGGGAAATTCTACTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018378:ENSRNOT00000031542:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.122 A=NA C2=0.424
Domain overlap (PFAM):
C1:
PF120523=VGCC_beta4Aa_N=PD(2.4=2.4),PF0001823=SH3_1=PU(51.0=61.0)
A:
NA
C2:
PF0001823=SH3_1=PD(44.9=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:
GCATTTGCAGTTCGGACCAAT
R:
TGGAGTAGAATTTCCCTTGCTTGG
Band lengths:
247-1885
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]