RnoINT0028221 @ rn6
Intron Retention
Gene
ENSRNOG00000004518 | Cacnb1
Description
calcium voltage-gated channel auxiliary subunit beta 1 [Source:RGD Symbol;Acc:68382]
Coordinates
chr10:85954138-85957936:-
Coord C1 exon
chr10:85957751-85957936
Coord A exon
chr10:85956007-85957750
Coord C2 exon
chr10:85954138-85956006
Length
1744 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAG
5' ss Score
8.68
3' ss Seq
GCCGTCTGTCTGCTAACCAGGGA
3' ss Score
6.94
Exon sequences
Seq C1 exon
GAAATGTTTGACATAATCCTGGACGAGAACCAATTGGAAGATGCCTGCGAGCACCTGGCGGAGTACTTGGAAGCCTACTGGAAGGCCACACACCCGCCTAGCAGCACGCCACCCAATCCGCTGCTGAACCGCACCATGGCTACCGCCGCTCTGGCTGCCAGCCCTGCCCCCGTCTCCAACCTCCAG
Seq A exon
GTACAGGTGCTCACCTCGCTCAGGAGAAATCTCAGCTTCTGGGGCGGGCTGGAGGCCTCACCGCGGGGAGGCGACGCAGTGGCCCAGCCTCAGGAGCACGCCATGTAGCCGATGTCCCTCCGGTTTTTCCTCCCACCCTGGAGTGCAGGGCACGTGAGGAAGGAAGGGAAGAGCTTTATTTTGTAAAAAACGTGGTGAGCGGCAGCATCTGGTGTCTGTGGTTTTTGGTGGGACTGGGGGCTGGCTGGTGCTGCCTCCCTGGACCTGGTCCCTTAGGACTGCATCTGCTGTCTGTTGGACTTGAGGACCTCTTTTAAGTCCAGGTACTAGGAGGAAAATCTGAGGACGAACAATAGGCTTGTCCGCTGGACTCCACGCCTTTTTCTTTTTGTTGTTGTTGGTTTGTTGTTGGCTTTTTGGAAACACAGTTTCATTCTGGCAGTAGCTGGCCTGGAATTTTCAGTGTTCCGGACTGGCCTCAAACTGGAGGCAATCCTCCTGCTTCATCCTCCTGGAGGCTGGAATTACAAGCTAGCACTACAATTTTCAGCTCCACACCCACGTTAGATCTAACAGAGTGGGGGCCAACGGATCCAGAAAACTTGCCTTTCCCTGACATCCCTCAATCCTTGAAGGACCCAGCTGAAGCATCTATGAGCTAAGCTGTACCTTCCACCGTCTCCCAGGGAAACAGAGTCCAAGAAAGGCTCTCCTCCCACGGAGCCACAGCCCATCTCTGAGCCCACACCATTAAGTGTGTGTATGGTCTGGCTTAGAGCCAGACCACCATGAAGTCATTCTAGACTGCTGCATCTCAAGTGGGAGCCCACTTGTTCAGTGAAACTGAGCCCCCCCCCCCATCCACTCACGGGGAGCTGGAGGCCTAGCCTCCCCTTTCCCAGCCTCAGGGACCACAGAAGCACTTCTTTGCCCAGCCCCACTGCCATAAACCAGCTCCCAGAAGCAGTTGGGAAGCTGGTGCCCTAGGGCAATTCCCATCACGCTCTAACCAGAAGATGGTGTCACAGAGAGGATAGCTCTGTCACACAGCTCTTGGAGGAGTTGTCAGCTACTGGTGATGAGGGCTTCGGGCCACCCTGTGATCTCCAGCTGTGGGTGTGGAGATGGGGAGGGTAGAGACTGGAGTCGTGGGCCTTCTTCCAATTGGCGGCTTTGAGAGCTTTATAGGGGGCAGGAAAGGAATCTCATCAACGTTGGAGACTCAGGGTTAGTCTAAGGAAGAAGTGTGGGTTTCTGGAAGCCTGGGACTGAGGTCTAGTGTGGGCAGAGGAAGCTGGGGGAGGTCAGTGAGTTTGAGCTGAAATTTCAGTGTATTGGGGAAATTGGAGCAATTGACTAACCCGAGCAACGACTAATGAGCGGCAGTACTAATGAGCTGTTAACGATGATTAACCCAGGAAAGCATTAATAACACTCGCTGAGGAAGCGGTGACTAATTATTCAGGGCTCCTTACCATGGTTACTAGGGGAGTTCATGCTCTGATGAAGTTGGGTGCCCTCAGGCTGCTAGAGGGAGGAGCAAATGGCCTGAGCAAATGTCCTAAGGCTTGTCCTTAGGCTCAGCTCTCTCAGCCATCGCTCTGCTCCTGTGTGCCCCACCCCTAGAGCCAGCGCGCTCCAGGAGCCAGGCTGGTGTCTTGGCTCCATCACTAACCTGCCTTGCTTTGTGTTTTTCTCACCCCTGCTTGATCTGCATGGTGCGTGCCGTCTGTCTGCTAACCAG
Seq C2 exon
GGACCCTACCTTGCTTCCGGGGACCAGCCGCTGGACCGGGCCACTGGGGAGCATGCCAGTGTGCACGAGTACCCCGGGGAGCTGGGCCAGCCCCCAGGCCTTTACCCCAGCAACCACCCACCTGGCCGGGCAGGCACCCTGCGGGCGCTATCCCGCCAAGACACCTTTGATGCTGACACCCCCGGCAGCCGAAACTCTGCCTACACGGAGCCAGGAGACTCGTGTGTGGACATGGAGACAGACCCCTCAGAGGGCCCAGGGCCTGGAGACCCTGCAGGGGGAGGTACACCACCAGCTCGGCAGGGCTCCTGGGAAGAGGAGGAAGATTATGAGGAGGAGATGACCGACAACAGGAACCGGGGCCGGAATAAGGCCCGCTACTGTGCGGAGGGTGGTGGGCCGGTTCTGGGGCGCAATAAGAATGAGCTGGAGGGCTGGGGACAAGGCGTCTACATCCGCTGAGAGGCAGGGGCAGTTCTGGGAGAGAAGAGGCTCTGAACTCGGGGAGGGGAGGGCAGAGGGGCGCACCACCCAAGATGTGTCTTGCCTCCAGGGGGCGCTTTGTCCCTCATTTTCAGATGCCTTTGCTCAAAGCTTGGGGTTTCTTTGGTGGTTATCATTCCCAACTCCTGGGAGGTCCTTAATCCCCAGCTGTAGGTTTTTCCCTAAACTGCTGTGGGTGGATGGGGGAATACCTACTTTCTGAAGTGCCCCCTTTCCCCATCTTTGGGGCTTTCTCCCTCCCAGAGAAAAGGTGCACTTCCTTAACTTTTTACTCGGGGCTGTAAGCGGAGGTCCTAATTGGGGTGGGGTGGAGGGGTTTCTTCTACCAACGCAGGGGTACTTGGGAAAGGTTGGGTGCTTTTCCTGAAGAGAACCCGCTGAATCTTCCACAAACCCCAGACCCGGGATCCCCCACCATATCCATTCCATAACCTAGTTTCCTAGCAGCATTCTCTGGTGGGTGAAAGCCACAGCTTGGAAACCCATGAAGAGCTTGCTTTGGGGAGCAGAGCTGGGTGCAAACTGACGGGCATCAGTGTGTGCTCTCTGCCCTCCATGGTCATGGCAAGAAAGCAGGGCCTAGAAACTTGAGGAGTGAGCAACTCAAGATGCTGCCCCCCGCAACCCCTTCCAGCCCTTGTCTCCCCCCGGGAATGAGCTTTGTCTACAGCATACCCTGCCTGCTGCCATCAGAAGAGAGGGGCCCTCTGCATCTGAGCCCCACATCTCCGTGCCGCCTGGGTGTGGAGACCATGAGACCATGAATACGTTGGGTCCACCTCATTCTAAACCAAAAAACCTGCTCTTTCACCTTCACCCCGAGGCCCCAGGGAACAGGCTCTATGTGTTGGTGCCCATGAGGTGACCGCCATTCAGGGGCTTCCTGAGGACCTTGGGTCTCCCCTAGGGGTCTTGGTTGCTGCTGCTTCTCTGTATTTGCCTCTTGTGATCCTGTCCTTTCCCGTGTCCACTTTCCCCAAGAGAGGCCTCGGTAGCCCCTCACCCCTGGGGTTCCCTTAGCCTCGGCATCCCTGTAGTCCAGCAGCCCTGCCCCTCCCCAGCATCACAGCTGGTCCAGAGAGAGCCGATTGTGCCAACGAGGACTGGGCCCTGCCCAGCTGCCCACCTCAGGGATGGGCACCTCATGCCTGTCTCGCCACCTCCTGTGCCAATGTTGCCCCACCCCTTCCGGGGGTGGGGCACAGCTTCCACTAACAGGTTAGAAGATAGCACTGCCCAACCTTTCGCTCCCCGTCCCCATCTACTGTCTCGTGCCCATCTGTCTGTCTGTCTGTCTGTACTCCTCTAGGAGAGATATTTTGCCACATATAAAACCGCAGTTCTGTCCTTTGCGGCCACCTCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004518:ENSRNOT00000006098:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.484 A=NA C2=0.993
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=PD(13.8=40.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTGGCGGAGTACTTGGAAG
R:
GCTCCGTGTAGGCAGAGTTTC
Band lengths:
345-2089
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]