RnoINT0028232 @ rn6
Intron Retention
Gene
ENSRNOG00000018378 | Cacnb2
Description
calcium voltage-gated channel auxiliary subunit beta 2 [Source:RGD Symbol;Acc:67385]
Coordinates
chr17:82014839-82016442:+
Coord C1 exon
chr17:82014839-82014934
Coord A exon
chr17:82014935-82016253
Coord C2 exon
chr17:82016254-82016442
Length
1319 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGT
5' ss Score
10.91
3' ss Seq
ATCTGAAATGCTTACCTCAGCAG
3' ss Score
0.4
Exon sequences
Seq C1 exon
GTTTTACAAAGGTTAATAAAATCTCGAGGAAAGTCTCAAGCAAAGCACCTCAATGTCCAGATGGTGGCAGCCGATAAACTGGCCCAGTGTCCCCCG
Seq A exon
GTAAGTAATCTACACGGTCCCAACAGTCTAGGGGTTAGACCTCCAGTGTAGAAAGGGTGCTTACATCTGGAGGGAGAGGCTCCTCCTCACTTACAATGGCATTCACTCTAAGGAAGTATGCCAGCGCCTGTGTGATAGTGCGCCTTGAATACGTGCAGACCAGGTAATGGTCGCCCTTCCGAAAACACCACAAACACCCCATGCAGCCCTCACTTTCTGTTAAAGGATGGTGGTTTGTAAGATGGGACTTCTTCGGAGTCTGGGTCTCACCCACTTCTAGAAACATGCAACAGGTTGTCCGAGAAAGTGAGTTTCACGTACAAGAACGGCAGTGGGAGCGCGCCTTCTGCAGCACACACTGAGGTCGGAGGATAGCATGGGTCTGGCCCTGAGCTTCCGTCTTGAGACAGGCGTCTTGGTGCTGGCTTGAGTATACAACAGGCTAGCTGGCTTGCTAATTTCCAGGACTCTCTTGTCTGTACCCTGTATTCTTGTACAAGTGCTGGGATTACTAAAACTCGACGCTATGCATCTAGCTTTGGCATGGGTTCTAGAGGTTCAAGTGCACAGCAAGCACTTCTCCCAGTGAGTTATCTCACTAGCCCCAAAGCCATATTCTTTCAAACTGTAAGAACGATCTTTTATTGAGGGAGGGGTCATTAATCCTTCTTTGCCGCAGCCTTCCTCACAGCTGCCAGCACGTTACTCAGCTCCTCCTGCTTTCTCTTGGCACAGATGTGCACACCCACCCTGCTCTTGATGAACTTGAGTGGTGCTTGTCCTTGGACACTTTGAGCAACTCTGTGACACCCTGCTTGCTCGTAGGGCTCAAAGCTGACACCTCCCGGACCATATCCCGCACGAACTTGGTGTGCTTGGTGAGGCGCCCATGGCGCTGGCTGTGTCTCAGGTTGCTGACATTTTTGGTCACTTTGTGGCCCTTGTTGAGGCCTACAGTCATGAGTTAGCACAGGGTCATGGCTGCTGCTCCCAGATGGTGGCCAGGACAGGAAGCCCAAACCAAATTTTTAAACAGTAAGTTTGGAACACATTCCTACTTTTACATATTATACTTTGGGACTATAGTTCCGATCTAGTATTCATTCAAGTACAGCAATTTCAGAAGATACTTTAAATCAGCCAAATTCATAATTGTATATTACATTTCACACACACAGGCTAAAAGAGCCAATGGAAAAGGAAATATCAGGGCAATAACAAATACAATGGGCAAGGCCTCTCTTCTGTTTACGGGTTTGAGGAAAAGACAGACTTGGTCCTGCATTGCATTAATGTGCTATCTGAAATGCTTACCTCAG
Seq C2 exon
CAGGAGTCATTTGATGTGATCTTGGATGAGAACCAACTTGAGGATGCTTGTGAGCATCTCGCCGACTATCTGGAGGCGTACTGGAAGGCCACCCACCCTCCCAGCAGTAACCTCCCCAACCCTCTCCTTAGCCGGACTTTAGCCACCTCAACTTTACCTCTGAGCCCCACCCTTGCCTCTAATTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018378:ENSRNOT00000031542:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.031 A=NA C2=0.524
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=FE(17.0=100)
A:
NA
C2:
PF0062516=Guanylate_kin=PD(14.3=41.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAAAGGTTAATAAAATCTCGAGGAA
R:
GTGAATTAGAGGCAAGGGTGGG
Band lengths:
278-1597
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]