MmuINT0173995 @ mm10
Intron Retention
Gene
ENSMUSG00000066278 | Vps37b
Description
vacuolar protein sorting 37B [Source:MGI Symbol;Acc:MGI:1916724]
Coordinates
chr5:124004641-124007691:-
Coord C1 exon
chr5:124007609-124007691
Coord A exon
chr5:124006739-124007608
Coord C2 exon
chr5:124004641-124006738
Length
870 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
3' ss Seq
CTTTCTCCTGCCTCTTGTAGAAC
3' ss Score
10.93
Exon sequences
Seq C1 exon
ATAAACAGTCTAACAACGCTTCCTTGGAGACTCTGTTAGCGCTTCTTCAAGCGGAAGGGGCAAAGATTGAGGAGGACACTGAG
Seq A exon
GTAAGGCCTGACAGCCCTAGTGGCCGCCCTCCACATGGCTGGACTCTTAGGTCACCCTGTTCAGTCCCTGTCCTCCAGGACATGGGAGCCCCACAGCTCCACAGCCAGCCAGCGGCACTTCCAACACACAGAGGCCTGGATGCACGTGGCCATCTTGGCCTCTGGCTAGGGAACGTGCTAGGCCGGGATCAAGCGGTTCAGCTGGGGCCTGGGTGTGGATGCTCATGCTGCCCTGAACTAATGCCAGCCTCTTGGGTGCTAGTGTCTGCGGCGTCTGCTGTGGTCAACGAGGCAGCTAATCGCTGCTGCTACACGTGGCTGGCTGAATCCAGGGCTGGAGCCTTGTGAGGGGAGGAAATGAGTCAGGGTCACCTGTATGTATGCCTTAGCAAGTCAGGGCTGGCTACACATTGCCAGGTCAGGCTGGCTTTGTCTGACTAACCCATTAGGCCTCGGCAGGCCCCGATAGCCACAAGTAGGGTTCTTGCCTGCGAACTCTGTTCAGGGTGAGTCACTGGTCGGCTTGCAGCCAGGTGGAAACCAGAGGGCAGGGTCTGGGCCGTGGCAATCTCTCAAGAGTGAGAGAGCTGGGAAGCTCAGAACCATGTTGTCATAAGTAAGGCATGGCCTTGCCAGGCCTGCCATCTGTCTGTCGTGGCTCTGCGAGGTGACGGCTCCTGCCAGCATCACCCAGGCCCATAGGTCAGCAGCTCTGAGCATGTGGCAGAAGACAGGCACCCAGGAGTGCTCGCAGGAGAAAGGGGTACTACAGGGATCTGAGAGCCTCTTTCCCTTTGCCTGGGCTGTGAAGGGAGCCTTCTTCCTAACAGTTGGCCTATCTTATAACCTGCTTTCTCCTGCCTCTTGTAG
Seq C2 exon
AACATGGCAGAGAAGTTTCTGGATGGAGAGCTTCCTCTAGATTCCTTTATTGATGTCTACCAGAGCAAGCGGAAGCTGGCGCACATGCGCCGTGTGAAAGTGGAGAAGCTCCAGGAGCTGGTGCTGAAGGGACAGAGACACCCGCAGGCCGGGGCCCCGCCACCACCCAGGGTGCCTGAGCCCTCACCTGCCACCGCCCTTCCCTACCCCTCTCTGGAGGCCACTGGGCTCCCTTCTGTCGTGCCTCGGCGTATTCCCCCCCCTCCACCCCCGGTGCCTGCAGGACACGTAGCCACCCCTTTCGCTGCTGCCATGGGCTCGGGACAGGTTTCTGCATACCCGGGATTACAGTGCCCACCCCTGCCTCCCAGAGTGGGCCTCCCCTCTCAGCAAGGATTCTCCGCACAGTTGGTGTCACCGTACCCACCAGCCCTGCCCCAGAGACCCCCTCCACGGATGGCCCCACACCAGCCAGGCTTCATCCTGCAGTGAGCTCGGGTGCCTGCTCTTCCTGCAAGACATCCTCTGCCTGCCGTGCCGAGCTCTGCAAACAGAGGCTGTGCGGTTCAGCATCTGGGCCAAGGGCTTGGGTGCCCTGGGTCAGCGTGCCCACCTGATTTTAGAACTGTAGGTCCGTGGTAAGTAAGAGAGCAGGTTCTGTGCACCAAGGGAGCGCTGTTTGTGCCAGGCCAGTCTGCATCACCTCAATCTGTGTTGGGTGTGATTTCTGAGTGTCTCGGGCTGATGGACTTGTGCATTTGGAAAGATTACCCCCACCCCCAGGTTAGAATCCTGGCTCTCCTGTTGCAGCTTTATTTAATAAGCATGATTAATTATATGTTTTATTTTCGAGTCTTGGCCCACCAGCTGCCGTGGCGCTAGTAAAGACTGGTCTCAGCTGGCCAGCCTGGAATGTGTGCCCACGGCCAGGCCCTGCTGGGCAGCTGTGCTGTTCACCGAGTGTGCAGGGCAGGCCAGCCCAGTAACCTCCCACTCCTGCCATGCTGGGTGCTCTCATGGTTCAAAGCCACAGGCAGAGTTTGCACTTGGCTGCTGTGAGGTGTGCAGAGGCCAGGCGAACTGTGGCCCGGGGTGCGAGGCCAGTGTGAGCCCTCAGCCCTCCCCACACACCTCAAGCCGCGTCACGGTTTCTGTGAAGAAGAAAAAAAGATACTCAATGTTTTTACTACACTTGTAATTTTCCTGTTTTATATTTCAAAAGAAAACTTTTTTGACACTCTCAAGACCATTCAGGGAAACTTTTTTTAAAATGCAGATACTGTTTTGAGCTGGTTTAAAAAATGCAGATTTATTGAGTGCCGCTTCCTGTCGGGCAAGCAGTGCACGGTCACATCTGCCAGTGCCCGTGCTGTGCCTTAGCTTCACTGGTGCCAGGACTCGGAGCCCGCGGCGTGCCAGCCGCAGCTGCCCTATGGAGCCGAAGACCAGCTAGGTAGGGCCTGGCGGGCCTCGTCACTTTGTGATGGGTCAGGAGTGGTCCATCTTCCTCCACCCCGGATAATCTCAGGAGCAATGCTGCAGGTGCTGGCGTAGGCATGGGAGGGGTTTGGGGACAGCCCGCCCCACAGGGTTGGCAGTGGCCGCTCCCTCCTCTCTGGGATGTCATCTGCAGGTGCCACATGTGCAGAGTTCCCAGGGCCCGGCTGGGGAGGGGCAGCCCCACACCTGTTCCCAGAAGAGGGCTGCGAGCCTGTTGGTAGAACTTAGAACCCCACCTTCACCCTGCCAGCTGGCTACAGCCCAAGGTAACACAGTCAAGGCAGCGCTGATTAGTGAGCCTGCCCCAGCTGGGCCACCGGCAGGGCCATCAGCCTTTGTCCCCAAGTTGGACTGTTTTCCTCTCCATGGATTTGGACTCTGTACCCTACTGGAACCACTCTGTAAAGAGACAAAGCTGTATGTGCCACTTCAGTACCTCTGCCACCAGGAACGCCCACTGCCAGTCTCGGGCCGCAGCCACATGGGAGCTCCGGGTGGATGCAGTAAAGGGGCCGCCAGGCTGACCTTGCCAGGCCATAGCTGGCACTGGGGCTGTAAAGCTGTAGAACTCTTAATAAATTGAGAATTATTAATTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000066278:ENSMUST00000040967:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.179 A=NA C2=0.736
Domain overlap (PFAM):
C1:
PF072008=Mod_r=FE(18.0=100),PF101464=zf-C4H2=FE(12.4=100)
A:
NA
C2:
PF072008=Mod_r=PD(24.0=22.0),PF101464=zf-C4H2=PD(71.9=95.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTGGAGACTCTGTTAGCGC
R:
CTACGTGTCCTGCAGGCAC
Band lengths:
354-1224
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