RnoINT0028231 @ rn6
Intron Retention
Gene
ENSRNOG00000018378 | Cacnb2
Description
calcium voltage-gated channel auxiliary subunit beta 2 [Source:RGD Symbol;Acc:67385]
Coordinates
chr17:82013468-82014934:+
Coord C1 exon
chr17:82013468-82013619
Coord A exon
chr17:82013620-82014838
Coord C2 exon
chr17:82014839-82014934
Length
1219 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TAAACCCATACCTTTTACAGGTT
3' ss Score
7.71
Exon sequences
Seq C1 exon
CGGAAGTTCAGAGTGAAATTGAAAGGATTTTTGAACTTGCAAGAACACTGCAATTGGTAGTCCTTGACGCGGATACAATTAATCACCCAGCTCAACTCAGTAAGACCTCTCTGGCCCCTATCATAGTGTATGTAAAGATTTCTTCTCCTAAG
Seq A exon
GTGAGTGGGTTGCACTGTTTTTCTATATTCAGATTTTACTGTCATGTGCTTTATGCTCTGTTCCTTTGTCATGGACGTAGTTTTTGAAAAGCTCCACACTAGTCAGGAAGTTTCAGGAGAAGAATGAGCATGTTTAACGTGTGGTCCAGAGCAGTGGTCCTCAAGTGTGGATCATGGCTCTCTGAAACGACTTCAGAGGGTCTGTGATGTGGGAGCCACGGGCACATTAGGGCGTTTCTCTCTATTACTCTTGGCATCTGCACATTTGGTGGGAAAGCTGCTGGGAGTCCAAGCCTGAGTGCAGAGTTCAGCAGCAAACGCATGTGTGCTCTCAGTTACAGACAACTCTAGAGCAGGTTTCACAGGATGAACTAAAACCTTCAGCTACAGCCCACAGTAAACTGCGCTGGGAGCTCCTGTCCTCAGGACTGCTGCCAGGATGCTCATTCAGACCTGAGGTCCTAGCAGACCTTTCCTTAAGCAGCCAGTCAGACTTCGAAAGAAGCATCTGCTGCCAGCAAAGCAGTGCTAAGCAGTGAAGTGCGTAAACATGTGGTTCATAGAGAAGTCACGAGTGATCTTACAAGTCGTGTGAGGAGAGGTCCAGCAGCTTCAACAGAGCAGGAATACGTTAAGCTGTTCCATGTAGCCCGCCCGAGTCCTCACGGCCACAGTTTGTGTAGCAATCCGTTTGCTGGACTTCAGTTTAGTACTGAAGAATGTCACTTGCTCTCTGATGAGGAAGCTGGCAAACCCTTTATTTAGCTGTGTATCTCTGCAATGGCCTCCTTACAAATATCAAAAAAATGCACATTATAGCATATTGGATATAGAAGCTAATATTTCAGATGTCTTAAAAAGTGATTTTTACTTTAAAATGAATTAACAGTGCTAAGATTTTTAGAAATATTTCCTGAAATCAATGGCCATTTGGGGTTCATGATATATATACATATTTATATATATGTATCTATATAAAGAGTTGATAAGGCAGGAATTTTTGAGAACTGTTAGGCGAGAAAGGACAGCCATCAGCTTTATACTAGTGCTTAAGTCTGCAAGAGATTTATGGAAACGTTAATTTTGGGGTTAATCTCTATGTTGTACTTTCTCAATGATACATGCTAATCATCCAGGGCCAAGTAGAAAGTAGTCCATAATGCACTGTGTAGCTCACCCAAGTACAGATGTTCCTGTTATAAACCCATACCTTTTACAG
Seq C2 exon
GTTTTACAAAGGTTAATAAAATCTCGAGGAAAGTCTCAAGCAAAGCACCTCAATGTCCAGATGGTGGCAGCCGATAAACTGGCCCAGTGTCCCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018378:ENSRNOT00000031542:10
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=0.031
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=FE(27.5=100)
A:
NA
C2:
PF0062516=Guanylate_kin=FE(17.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGAAGTTCAGAGTGAAATTGAAAGG
R:
GGGGACACTGGGCCAGTTTAT
Band lengths:
246-1465
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]