RnoINT0028230 @ rn6
Intron Retention
Gene
ENSRNOG00000018378 | Cacnb2
Description
calcium voltage-gated channel auxiliary subunit beta 2 [Source:RGD Symbol;Acc:67385]
Coordinates
chr17:81922329-81923535:+
Coord C1 exon
chr17:81922329-81922595
Coord A exon
chr17:81922596-81923415
Coord C2 exon
chr17:81923416-81923535
Length
820 bp
Sequences
Splice sites
5' ss Seq
TGTGTAAGC
5' ss Score
4.52
3' ss Seq
ATCTACGTTCTCCTCTGCAGGGT
3' ss Score
10.56
Exon sequences
Seq C1 exon
GAAATGGGAAAATAAGATTCTCCTCAGACAGAAGTCTACTGGGGCTGGGAGTGAGAGCCTCAGAGGGAGAAGGGGACTGAGAAGAGGGGCTTCTTAGAGCATGGAGAGCAAAGGTACTAGGATTCTCCAGGGCTCAGCGCGCTCTGAGGCTCTGTACCCTGGGCTGCAGCTGCGGAAGATAAAGGCGCTATCCGGCTCATGAAGGCCACCTGGATCAGGCTTCTGAAAAGAGCCAAGGGAGGAAGGCTGAAGAATTCGGACATCTGT
Seq A exon
GTAAGCGAGAGGGCTTTTTGTTCGGGGGGAGACAGTGTTTTCTTTGCTTCTCCGTGGTTGCAGCAAGAGCTTGCCTGCCGAGAGGGTGGTTTGATTTAGTTAATACACTCATGATTGCATGAGAGGGAGCTAGGGAGATTCCTGACATTTTTCTGAGCTCCTTTTCCTGCGCTGTAATTTATTACCAGAGGAAATCTCCCAAGCAGGTGCTGTCTGTAGCCAGCTCTCACTAAATAATCTGTGTGCAGGTATTTTTAAGTATGTTCCTGAGAGAGGGAGGGAAGCAGGCTGGAGTGTCTTTCCATACTGTTGGAGAAGGTAGCAGGTGAAGAACGAGGTAGAGAAACATCCTTGAGACGATAATGGGAGTTGTATCATGGCAGCAAGATTACAGGGGGTTCAAGTTTGTAACTCCTCAGACTCCCTTTGATGTGTTGGTCTCTCTGGGTGTAAGCACTTGCTCCAGCCCTCAGGCTGGTGTTGGGAATTATCCTTGAAATGTATCAATGCCCTTCAGCTCTGTACTGCACCGCCGACTTGGTTTAATGACTGAAAAAAAAACTGATAGAGGCTTCAAGAAAGGATACTTTGTGGTAAATGAACTTGGGGAACGAACGGTGTTTGGGTCTACACCTTAGTGAAAAAAATGTGCAGGGCAAAGGGTGTTTTTTTCTAGGTGGGTTGTTGCAAACAGACTATTTTCTCCTCTTTTCAGGAATTTACATTGTATCCCAGGAAGCAAACTACCACATCAGTGAGGCTTTTCCTGTGCACCCAGCACACACTCGATCTATTTTATAATCTACGTTCTCCTCTGCAG
Seq C2 exon
GGTTCGGCAGACTCCTACACCAGCCGCCCATCGGATTCAGATGTGTCTTTGGAAGAGGACCGGGAGGCAGTCCGTAGAGAAGCTGAGCGGCAGGCCCAGGCCCAGTTGGAAAAAGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018378:ENSRNOT00000031542:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.769
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF120523=VGCC_beta4Aa_N=PU(92.9=97.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGAAGTCTACTGGGGCTGG
R:
TTGCTTTTTCCAACTGGGCCT
Band lengths:
358-1178
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]