RnoINT0028233 @ rn6
Intron Retention
Gene
ENSRNOG00000018378 | Cacnb2
Description
calcium voltage-gated channel auxiliary subunit beta 2 [Source:RGD Symbol;Acc:67385]
Coordinates
chr17:82016254-82017682:+
Coord C1 exon
chr17:82016254-82016442
Coord A exon
chr17:82016443-82016995
Coord C2 exon
chr17:82016996-82017682
Length
553 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TGTGTGTCCCTTTGCCACAGGGT
3' ss Score
10.64
Exon sequences
Seq C1 exon
CAGGAGTCATTTGATGTGATCTTGGATGAGAACCAACTTGAGGATGCTTGTGAGCATCTCGCCGACTATCTGGAGGCGTACTGGAAGGCCACCCACCCTCCCAGCAGTAACCTCCCCAACCCTCTCCTTAGCCGGACTTTAGCCACCTCAACTTTACCTCTGAGCCCCACCCTTGCCTCTAATTCACAG
Seq A exon
GTAAGAGCACTTCCTTTTATGGTCTTCATAGAGAATGTAGGCTGTCTCAGCTGATCCCCTGAGACTCAAGTCCAGTGAAGGGACATCATGCTTGATCTGCTACTGTTTGCTCACCAAGAAGCCCAAGTGCCAGCTGACCAAGTTCTATCAGTCCAGTATGAATTGTGTGCCTAAACAAAGAGCTGTGAACATACCTCAGCCATCCCTCTGCGAAGGCTCTGGGATAGTATATGTCCTCTGTATATCCTCCAACTTAATGAATTTTAATCTGTTCAAGCAGATTAGTTAAGACTATGGTTATAAGATACCCGTATCAGTATCAGAATCACAAAAGACTAAAAGTCACCCTTCTTGCCCCTTCACTGAAATGAAATGTTATGGGAACACTAGTCCAGCTTAAGTCATGCCACTGAGTATGTCAAAGGAGTGAAGGGCTGGGCTTCATTTCGGGTTTTGGTACTTCAGACAGACAGACAGACACACTTACACGATGCTGCTCCCAAGACATGTTAGTTCCTCAGCTGATGCCCTCATGTGTGTCCCTTTGCCACAG
Seq C2 exon
GGTTCTCAAGGTGATCAGAGGACTGATCGCTCTGCTCCCCGGTCTGCTTCCCAAGCTGAAGAAGAACCTTGTCTGGAACCAGTCAAAAAATCCCAACACCGTTCTTCCTCAGCCACACACCAAAACCACCGCAGTGGGACAGGTCGAGGCCTCTCTAGGCAAGAAACGTTTGACTCTGAAACCCAAGAGAGCCGAGACTCTGCCTACGTGGAGCCAAAGGAAGATTATTCACATGAACATGTGGACCGCTATGTTCCACACCGTGAACATAACCACAGAGAGGAGAGCCACAGCAGCAATGGCCACAGGCACAGGGAGCCTCGCCACCGCACTAGGGACATGGGTCGAGACCAGGACCACAATGAGTGCAGCAAACAACGAAGCCGGCATAAATCTAAGGATCGCTACTGTGACAAGGAAGGGGAAGTAATATCCAAAAGAAGGAGTGAGGCTGGCGAGTGGAACAGGGATGTATACATCCGCCAATGACCGTGCGTGTCTCTGCCCCCAAGTCTTGTGTAACATCATCCTTAAGCAAAATCTTTGGGGCTCCATTGCAACCATCTGTGATCTGTCTTGTATATTTTGTATTGCTGTTGCTTGAATAGCAATAGCATGCAATCAAGTATTACTATACATTCTTTTGTAAGTACCACAGAAATTGGCCTAGTACAAGCTGCAGTCCTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018378:ENSRNOT00000031542:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.524 A=NA C2=0.992
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=PD(14.3=41.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
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:
CAGTAACCTCCCCAACCCTCT
R:
GTGTGGAACATAGCGGTCCAC
Band lengths:
346-899
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]