MmuINT0027936 @ mm10
Intron Retention
Gene
ENSMUSG00000017412 | Cacnb4
Description
calcium channel, voltage-dependent, beta 4 subunit [Source:MGI Symbol;Acc:MGI:103301]
Coordinates
chr2:52469477-52474985:-
Coord C1 exon
chr2:52474863-52474985
Coord A exon
chr2:52469608-52474862
Coord C2 exon
chr2:52469477-52469607
Length
5255 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAT
5' ss Score
8.39
3' ss Seq
CTTTCCTCTCTGCTTTCCAGAAA
3' ss Score
10.56
Exon sequences
Seq C1 exon
TCCAAACCTGTAGCTTTTGCGGTGAAAACGAACGTGAGCTACTGTGGTGCCCTGGACGAAGATGTGCCCGTTCCCAGCACAGCCATCTCCTTTGACGCCAAGGACTTTCTTCACATTAAAGAG
Seq A exon
GTAAATGTAGGACATACTGCACCTCATCACCTGCCAAAAAAGCTAGAGCTGGGAGTCAGCCTGTGCCAAGCCCAGAGGAGAGGCGACCCAGAGAGCTGCCAGTGTGGAGCCTCGGTTAACGCTCTGGGCCTCTGCATCCTCTCATCTCACTGAGACTTAGAGGATGAGATCATCGCCTACCTGCACTGCCACGTGGTCCCAGCAGTAGGGCACACCCAACATTTAGAATGATAGCATGGACTTTGAATTTTGTACCACACCTGTTCTCTGTCTGTCTGTCTGTCTGTCTGTCTATCTCTTTGTCCTGTCTCTCTATGTTTCTCTCTATATCCTTCTCTGTCTCTCTGTCTCTCTGTCTGCCCTCTCTGTCTTTCTCTGTCTCCGTCTGTCTCTCTTGTCTTTCTCTGTCTCTTTGTGTGTGTGTGTGTGTGTGTTGGGAACCAAACCCAGGGTCTAGTGGAGACTACAGAGCCATGGATCTATGGATCTAACTTAGGGAAACATGAGTTTGGTAGCAGCAGTATCCAGGAGGGACTTTTTACAGAAGGATATTATCATTAAAGACACTGAGCTGTGGCTCTGAAATACTTAAAGCTAAGAAGGGCATAGAGGACTCTAGGAAACAGACAGTTTGAGGGGATGAGCAAGGTAAAGAGGACTTGAGGCTTCACGTGTGTGGAAAGGTAGAATAATAAAATAATACAACAAAAGCTTGAGTTCTGTGCACAGCCCAGGCACAGTGTAGTTCTGCTTTGTATCAGGCACTGTGCTAAGTGTTGGAGGATGAGATATAAGGACCGCTGATGGTCCTTATGGGCAAGGCACTCTGAGTCTTGGGGCAGGGTGAATAGTATTCCTGATGTCTGTATGTATAAAAGAAACAACTGGACTCATGTCCTGAAGGTTCACAGAAAGAGTCAGAACTGGACACAGAGTGACATCAGGGGGACAGCTGAAAACACCCCAGCATGGCCAGAGAGCAGTAACAGAAGTAAAACAGAAGAGGCCATGTCCAGGATTCAAGACAGAGAACCTTCCTTTTGGATGTGCTCAGGTTGAATTCAGGGCCATATGTGCACCAGACAAACATTGCTGAGCTGTTAGCCGTAGCCCTCAGGGAACATCTTGCACCAGGGCAAGAAGACCGGTCCTTATCACCAGACAGTAGGCTGGAAAGGAGTTTGGAATAAAGCAGAGATGTGCTCTGCCTTTTGTGTGAGGATGAGAGCTGTGATGGGCAAGGGGAAGCACCTAGGGCTGCAGAGACTGAGCAGTCACTGGGCAGCTTAGAGGAAGGGTGAAGGAGCAGATAGAAGGGATTTGGAGGCCCCACGCCACTGCATGTAGTAGAGCAAGCAAGAGAGGGAGAAACAGAGGGATGGTGGTCAGCTTATTTAAGTTGGCTGGAATTATAGGAAGGAGCAGCAGCCTCTAGATTCAGCTTTTGAAAGAGAGAAGGCAGAAAGGGGACCAGATCTGGCAGTGCACGGCCATGAATTTATGTTTGAACACACTCTGTCTGGGGCTATCCCCCTCAGCACATGAGTGGTTGAATCTCTCTCACTATTTTCTTTTTTATTTTAACTTGATAAGTTTTAAGTTAAAAGATAAGTTTAACGTTTTATTTTTAAAGATCTATTGATTTATCTCATATACGTTGTTGCTGTCTTCAGACACACCAGAAGAGGGCATCAGATCCCCGTTACAGATGGTTATGAGCCACCATGTGGTTGCTGGGATTTTAACTCAGGACCTCTGGAAGAGAGCAGTCAGTGCTCTTAACCCTTGAGCCATCTCTCCAGCCCCTCTATTTTCACTAAAAGCAACTAAGTCATCTTCGTGAGTTACCTGCCAGCATTCATCCTTTCAAAGGTGAAGCAAACTTTAAGAGCAAGGGACATTCTTCCACACATATGACACAGACATTCCAACCTTGCAGTATTTTATTGCTTTTTACATTGCACTAGTATTCTAGTTTTTATTAATACTTATTTTAATTGGACATATTTATGTGATCATCTGATATGTATTACATATAATAGGTCACAATGAAATCCGAAGAGTTAACACTTTGGGTTCTCTAAACTTAAATAAAGCTTTCTGAGGTAGGGTATGACATTTTGAATCATGTATGAAGCCTGTCCTGACCAAGTTGGAATAACTAATATTTGCATCTGCACAGAGGCACTGTGTGTGGCACCTTTGAGCTGCTCCGAAGGCACTTTGCTGTGTCTTGCTGGCAGTGTTTGGCTCTGTGAGCTGTTGATCAAGGGATTTTCCTCCAGCCTAGCAGCTCCTTTTCCTTGTGTAGTGTCTGAGCTAGTAATCGTATATGGCTCAGAGCCACTGTTTTCTCATCTTGCAGATCAGATTAAAAAAAAAGAAATCTTAGAAAGAGAACATGCTAATCACTTTAGGGAAATCAAGATGGAGAAGACTGGAACAGCGCTAAGGGGCCTTTCCAGAAAGCTGGCTCAGCCCGTGGGACATCACCAACCCAGATGGGCAGGCTTCTGTAGCAGGCTGATTGCTTCCTGTTCAGCCATCTCTCAAGTACCTTTCTAAGTGCTTTCTTGGCCTAAAGGTCAAGAATGGGGCTACAACAGTGGAGGTTCCAAAGCCAAACAGAGGGCCTCATGCTTCCACTCTGCACCACAGTGCCTTGCTCCCCAGGGGCCGGAGAACTCTCACTTACTTTGAGTAGGAGCCTCTGTGTTCTTTAGCTGTTTCCTAGAACTACGGGAAACCACTTTGGGAAGTTGTATTAGCCATCTTAGGCAACGCTGTAAGGCCATTGGGGTACCACTTAACTAATTAGTATCCTGGTGGGCTGACTTAATTTCAGGAAATAACTGAAGCCCCAGGAAACTATGACTCATGGTCTGTGTTATTCCTGCCACACTAGAATGTAAACCCCAGACCTTATGCACCAAAGATTTCAAAAGGGCCCTCTTGCCTTTTCCTAATTACAAAGTAAACAGGCCTGTTATTTCAGGTGTGTTATCCTGAGTTAGTCAGGAAACTAAGACCCAGATTGCTCAAAGTTCCCTATCCATCAGCTCACACTCCTTTCAACTCTGACTCTGATTGGCAGGGAGCCTGGCTGATGCAGGAGCTCTGAGCAGGAAGGGTTGAAGCCTGCCGTGTCACTGTCATTTCAGTGTGAGATTGTTACTTAAAATTATTCAAATGCCATGCTGTGATGACTCAATGAACCTTCCAGGCTTCCTTCTCACATTGTCAGTACTGGAGATATGCCAATTCCACTTTCTTCTTCTTTTTTTTCCCCTCCTCTTTTTTTTTTTTAAATTAGGTATTTTCTTCATTTACATTTCCAGTGCTATCCCAAAAGTCCCCCATACCTTCCCACCCCCCCCACCCCCCATACACTCCCACTTCTTGGCCCTGGCGTTCCCCTGTACTGAGGCATATAAAGTTTGCACGACCAATGGGCCTCTCTTTCCACTGATGGCCGACTAGGACATCTTTTGATACATATGCAGCTAGAGACACGAGTCTGGGGGGTACTGGTTAGTTCATATTGTTGTTCCACCTATATGGTTGCAGATCCCTTTAGCTCCTTGGATACTTTCTCTAGCTCCTCCATTGGGGGCCCTGTGATCCATCCAATAGCTGACTGTGAGCATCCACTTCTGTGTTTGCTAGGCCCCGGCATAGTCTCACAAGAGACAGCTATATCAGGGTCCTTTCAGCAGAATCTTGCTAGTGTATGCAATGGTGTCAGCGTTTGGAGGCTGATTATGGGATGGATCCCCAGGTATGGCAGTCTCTAGTTGATCCATCCTTTCGTCTCAGCTCCAAACTTTGTCTCTGTAACTCCTTCCATGGGTGTTTTGTTCCCAATTCTAAGAAGTCCACTTTCTTCTGAACTAAGTAACTTATCTTACAGTTGGTATATATTTCAACACACACAGACATGCACACATACACAAATACACATGGATACATAGGCACATATTCACACACACATATACACACAAATATACATATTGACACACATATACGCATGGATACACACACAAACACACATATACACATGGATACACACACAAACACACATACATGTACACATACATACAAAGACATATAGATACACATACAGAGCCACACATATACACAGAAACACAGAGACACACACATACACAGGCAAACATACACACATACATACACACACATATACATAAAACACATATACACACAACATGCACATGTACATACACACACACACACACACACACAAATAAAATCAAAGAAAATAAGTTTCTTATTCCTGGAAGGTTTAAATGATATAATTTTTATCTATTTTCTAGAAATTACCAGTAGAAACATTCCCTTGAGACAGGTGGCTTAGACTAAACTTCTGTCTGCCCTGGGCTCAGTAAATCAATAATTGCCAATATAATTTTTCTGGCACTTTGGCTAAGACCTTGCTGATAGATGGTTACCCTATACTCATTAGAGTCATTTGTGGACTTGTGTCCCTAGTTTTGTACGTTATGAAACCAGGAAGAAATCGTTCAATTCCCTTAGGTCTAGGCCATAGATTATTTCCAAATCATATCTACAAACATGTCATTTGTTCGGACTTTGTAACTTTTGGACTTTTTCCTCAAAGAATGGGCTATGCCTTCATTTGAAATCCTGCATTTGAATGAGAGTCTACAGTAAACAGTATCCTATGAATTTCACCTGAGAGCTGTTAGTGAATGACTGTCCTTCAAGAGTTTTACACTTAACATGTTGTTACCATTGATACAAACTGTGTCTGGTGGGACCTTTTGTCTCGAGGACTAAGTAGGCCTTCTTGAAAGAACTGAATGAATCCAGAGGTTAGAACCTACTTTTGATAAGGGCTGACAAATAAGAGTGCACAGGGTTCTAACTGACCCACTGCCTCTGCCATAAAGCAACTTACATGGAAACACAGCCTCTTCAGGCTTTGTGGCTATTTTCACAGTAGGACAGCAGATTCGAGTATTATAGTAGAGAGTGCATTTATCATTTGGGCCTTTACAAATAAAACCCCTGAAGAATCCTCCTTTAGTCTGTGAGCTGAAAACATTTCCTACAAAACACAAAACCACGACCTTTGTGGTCTCTATGTCCTGTGTGCACTCTGAGGCGTAGTCCACCTGACGGTGTAACATTGTATCCTTCACTTCCTTGGAGTTAACTACTGAGATGTGAGGGTAACTGAATTACTATTGAGGGTAGCTTTCCTCTCTGCTTTCCAG
Seq C2 exon
AAATATAACAATGATTGGTGGATAGGAAGACTGGTAAAAGAGGGCTGTGAGATTGGCTTCATCCCAAGTCCACTGCGCTTGGAGAATATTCGGATTCAACAGGAACAGAAAAGAGGCCGTTTTCATGGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000017412:ENSMUST00000102760:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.223
Domain overlap (PFAM):
C1:
PF120523=VGCC_beta4Aa_N=PD(2.4=2.4),PF0001823=SH3_1=PU(44.2=46.3)
A:
NA
C2:
PF0001823=SH3_1=PD(51.2=50.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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