MmuINT1005956 @ mm10
Intron Retention
Gene
ENSMUSG00000020882 | Cacnb1
Description
calcium channel, voltage-dependent, beta 1 subunit [Source:MGI Symbol;Acc:MGI:102522]
Coordinates
chr11:98001508-98005314:-
Coord C1 exon
chr11:98005129-98005314
Coord A exon
chr11:98003363-98005128
Coord C2 exon
chr11:98001508-98003362
Length
1766 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
GAAATGTTTGACATAATCCTGGACGAGAACCAATTGGAAGATGCCTGCGAGCACCTGGCTGAGTACTTGGAAGCCTACTGGAAGGCCACACATCCGCCTAGCAGCACGCCACCCAATCCGCTGCTGAACCGCACCATGGCTACCGCAGCTCTGGCTGCCAGCCCTGCCCCCGTCTCCAACCTCCAG
Seq A exon
GTACAGGTGCTCACCTCGCTCAGGAGAAATCTCAGCTTCTGGGGCGGGCTGGAGGCCTCACCGCGGGGAGGCGACGCGGTGGCCCAGCCTCAGGAGCACGCCATGTAGCCGATGTCCCTCTGGTCTTTCCTCCCACCCTGGAGTGCAGGGAACATGAGGAAGGAAGGGAAGAGCTTTATTTTGTAAAAAACGTGGTGAGCGGCAGCGTCTGGTGTCTGTGGTTTTTGGTGGGACTGGGGACTGGCTGGTGCTGCCTCCCTGGGACTGGTCCCTTAGGACTGCATCTCCTGTCTGTTGGACTTGAGGCCTGATGGGGACCCCATATAAGTCCGAGCACTAGGAAGAAAATCTCAGGAAGAAGAATAGGCTGTTCATTGGACTCTACACACTTTTCTTTTTGTTGTTGTTGTTGTTGTTGTTGGTTTTTGGAAACACAGTTTCATTCTGGCAGTAGCTGGCCTGGAATTTCCAGTGTTCCAGACTGGCCTCAAACTGGAGGCAATCCTCCTGCTTCAGCCTCCTGGATGCTGGAATTACAAGCTAGCACTACAGCAGTCAGCTCCATGTACCCACGTTAGATCTAACAGAGTGGGGGCCATCGAATCCAGAGAACTTGCCTTTCCCCGGCATCCCTCAATCTTTGAGGGACCCAAGCTGGATCTATGAGCTAAGCTGTACCTTCCACCGTCTCCCAGGGAAACAGAGTCCAGGAAAGGCTCTCCTCCCACGGAGCCACAGCCCATCTCTGAGCCCACACCGCTAAGTGTATGGTCTGGCTTAGAGCCAGAACACCATGAAGTCATTCTAGACTGCTGCATCTCAAGTGGGTTTTCAGCAACAGAGCTCACTTATTCAGTGAAGCTGAGCCGTCCTGGATCTACTCATGGGGAGCTGGGGGCCTAGCCTCCCCTTCCCAGCCTCAGGGACCGCAGCCTTCTTTGCCCCCACCCCACTCTGCCAGAAAACAGCTCCAGGAAGCAGTTTGGAAACTGGTGCTGTTTTGCAATTCCCATCCCGCTTTAACCAGGAATTGGTACTACAGAGAGGATAGCTCCATCACACACCATGAGATGGCCGGAGCTGTCAGCCACTGGTGATGAGGGCATTGGGCCACCTGTGGTACTCCGGCTGTGGGCATGGAGCTAGGGTAGAGACGTGGAGTCATGCGCCCTCTTCAAACTGGCTGCTTTGAGTGCTTTATGGGGGTGGCGGGGCGGGGGGGGGGGGGGAGGAATCCTTCAACCTTGGAGGCTCAGGGTTAGCCTAAGGAAGAAGTGTGGGTTTCTGGAAGACTATGGCTGAGGTCTAAGTGTGGGCAGAGGAAACTGGGGGGTGGGGAGGTCAGGGAGTTCAAGCTGAAATCTCAGTATATTGGGAAAATTGGAGCAATTGACTAACCCAAGCAACGACTAATGAGCGGCAGTACTAATGAGCTGTTAACGATGATTAACCCAGGAAAGCATTAATAACATGCACTGAGGAAGCGGTGACTAATTATTCAGGGCTCCTTACCATGGTTACTAGGAGAGTTCACGCTCAGATGAAGTTGGGTGCCTTCAGGCTGCTAGAGGGAGGAGCAAATGGCCTATGGCATGCCCTCAGGCTCAGCTCTAGAGCCACGCCCTGCTCCTGGGTGCCCCTCCTCTAGAGCCAGCGCCCTCCAGGAGCCAGGCTGGTGTCTTGGCACTATCACTAACCTGCCTTGCTTTGTGTTTTTCTCACCCCTGCCTGATCTGCATGGTGCGTGCCGTCTGTCTGCTAACCAG
Seq C2 exon
GGACCCTACCTTGCTTCCGGGGACCAGCCGCTGGACCGGGCCACTGGGGAACATGCCAGTGTGCACGAGTACCCCGGGGAACTGGGCCAGCCCCCAGGCCTTTACCCCAGCAACCACCCACCTGGCCGGGCAGGCACCCTGCGGGCGCTATCCCGCCAAGACACCTTTGATGCTGACACCCCCGGCAGCCGAAATTCTGCCTACACGGAGCCGGGAGACTCGTGTGTGGACATGGAGACAGACCCCTCAGAGGGCCCAGGGCCTGGAGACCCTGCAGGGGGAGGCACACCACCAGCCCGGCAGGGCTCCTGGGAAGACGAGGAAGACTATGAGGAGGAGATGACCGACAACAGGAACCGGGGCCGGAATAAGGCCCGCTACTGTGCGGAGGGTGGTGGGCCGGTTCTGGGGCGCAATAAGAATGAGCTGGAGGGCTGGGGACAAGGCGTCTACATCCGCTGAGAGGCAAGGGCAGTTCTGGGAGAGGAAAGGCTCTGAGCTCGGGGAGGGGAAGGGAGGGCAGAGGGGCACACCACCCAAGATGTGTCTTGCCTCCAGGGGGCGCTGTGTCCCTCGTTTTCAGATGCCTTTGCTTAAAGCTTGGGGTTTCTTTGGTGGTAATTATCCCAGCTCTTGGGAGGTCCTTAATCCCCAGCTGTAGGTTTTTCCCTAAACTGCTGTAGGTGGATGGGGGAATGCCTACTTTCTGAAGTGCCCCCTTTCCCCATCTTTGGGGGCTCTCTCCCTCCCAGAGAAAAGGTGCACTTCCTCAACTCTTTCTACTCGGGGCTGTAAGCGAAGGTCTTAATCGGGGTGGGGGTGGGGGCTTCTTCTACCAACACAGGGGTACTTGGGAAAGGTTGGGTGCTTTTCCTGAAGAGAGCCCGCTGAATCTTCCCCAATCCCCCAGACCCGGGATCCCCCACCATGTCCATCCCATAACATAACAGTTTCCTAGCAGCATTCTCTGGTGGGTGAAAGGCACGGCTTGGAAACCCTTGGGGAGCAGAGCTGGGTGCAGGCTGCTGGGCATCAGTGCGCGCTCTCTGCCCTCCATGGTCATAGCAAGAAAGCAGGTCCTAGAACCTTGAGGAGTGAGCAACTCAAGATGCTGCCCCCCTCCCTCCACCCCTTGCCTCCCCCAGGAATGAGCTTTGTCTACAGCATACCCTGCCTGCTGCCATCAGGAGAGAGGGGCCCTCTGCATCTGAGCCCCACATCTCCGTGCCACCTGGGTGTGGAGACCATGAATACTTTGTGGTCCACCTCATTCTAAACCAAAAAAACTGCTCCTTCACCGTCACCCTGAGGCCCCAGGGGACAGGCTCTATGTGTTGGTACCCGTGAGGTGACCACCATCCAGGGGCTTCCTAAGGACCTTGGGTCTCCCCTAGGGGTCTTGGTTGCTGCTGCTTCTCTGTATTTGCCTCTTGTGACCCTGTCCTTCCCCAGTGTCCACTTTCCCCAAGAGAGGCCATGGTAGCCCCTCTCCCCTGGGGTTCCCTTAGCCTCAGCATCCCTAAGAGTCCAGCAGCCCTGCCCCCTCCCCAGCATCACAGCTGGTCCAGAGAGAGCCGATTGTGCCAACGAGGACTGGGCCCTGCCCAGCTGCCCACCTCAGGGATGGGCACCTCACGCCTGTCTCGCCACCTCCTGTGCCAATGTTGCCCCACCCTCCTGGGGGGTGGGGTGCAGCTTCCACTAACAGGTTAGAAGATAGCACTGCCCAACCTTTCGCTCCCTGCCCCGGTCTACTGTCCTGTGCCCATCTGTCTGTCTGTCTGTCTGTACTCCTCTAGGAGAGATATTTTGCCACATATAAAACCGCAGTTCTGTCCTTTGCGGCCACCTCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020882:ENSMUST00000017552:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.389 A=NA C2=0.993
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=PD(13.8=40.3)
A:
NA
C2:
NO
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGCTGAGTACTTGGAAGCCT
R:
GGCTCCGTGTAGGCAGAATTT
Band lengths:
343-2109
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types