MmuINT0173994 @ mm10
Intron Retention
Gene
ENSMUSG00000066278 | Vps37b
Description
vacuolar protein sorting 37B [Source:MGI Symbol;Acc:MGI:1916724]
Coordinates
chr5:124007609-124010859:-
Coord C1 exon
chr5:124010688-124010859
Coord A exon
chr5:124007692-124010687
Coord C2 exon
chr5:124007609-124007691
Length
2996 bp
Sequences
Splice sites
5' ss Seq
TAGGTAACA
5' ss Score
6.25
3' ss Seq
TATTTTTTACTGTTTTCCAGATA
3' ss Score
9.82
Exon sequences
Seq C1 exon
GCGCAGACGGTTCAGCTTAACAAAGAGATGACCCTGGCTAGCAACCGGAGCCTGGCAGAGGGAAACCTTCTGTACCAGCCCCAACTGGATGCTCAGAAAGCTCGCCTGACCCAAAAATACCAGGAACTCCAGGTTCTCTTTGAGGCCTATCAGATAAAGAAGACCAAACTAG
Seq A exon
GTAACATTTTTTTTCAGGTGATCTTTGAGATTAAAGAGTTGAAGGAAGACTGAGCAGTGATGGCGAAAGCCTTTATTTAGTCCCAGCACTCGGGAGGCAGAGGCAGGTGGATCTCTTAATACAAGGCCAGCCTGGTCTACAGCCAGGGGTATACAGAGAAACCCTGTCTTAACTGAAAAGAGTTGAAGTAAGCGTACAGAGTTCAAAGGTCTCCCTACCAGGAAAATGACATGAAAAAGTCTCAGGTCACATTAGTGACTGCCGTGACAAGCAATAGTTTGTATATAGAACACACTGCTGGTTTAGGGAAGAAACCACTTTCTAAATCCACGACTCCGCCTGCTCCAGAGAGTACAGCAGAAATCTTCTGAACTGGGGTAGTCAGCTGACACTTCAGAAGAGCCTTATCGCCGGAACATTGTGCAGAAGTGTCAGAGCTCACTTCATCTGTATACAAAGATAGAAGGACTGAGTGTGTATGTGGTGCGGTACGTGTGTGCTGTCAGTGTGTATGGTATAGTTGTGACTGTGGTATGTGTAGCCTATTCGTGTGTGTTGAGTGTGTAGTATATGTGTATATGGGGGTGAATGTGTGTGTGTGTGTGTGTGTGTGTAGGGGAGTACGTGGTATGTCTGAGTGTGTGTGTGGTGTGTGGTATATCTGTGAGAGTGTATGTGGGGTGTGTGTGGGAGGTGTATAGTGCATGAGTGAGTGTGTTGGGAGAGAGTGGTGGTGTGCTGTGTGTGTCAGCCCTGGTTGGGCTTGAACTGAACTTTGTAGCAGCAGACGACCCTTCCTGCCTCTGCCTCCTAAGTGCTGGGATTGCGAGTGTAAAGCAGCAGGGCCTCAGGGCTGAGGCTGAGGCTGAGGCTGTTCATGGAGCGTTTAGATTGAGAGACCTTGGGGCAGAGAGAGAGACAGAGACAGAGACAGAGAGACAAACCGACTGACTTGTGGGCCTAGAGAGATGTGGCTCAGTGATTAAGGGCATCATCTGTTTTTCTGGAGACCCAAGATTCAGTTCCCAGCCCCCACTCGGCAGCTCACAACTGCCTTGATCCAGTTCCAGAGGCTCAAACCGCCCTCACGCAGACATCAATGCAAGCAAAATACCAATGTACATAAAATACAAGTAAAACAATTTCTTCTTTTTTTTTTTTTCCTTTTTTCTTTTTTTGAGACAGGGTTTCTCTGTGTAGCGCTGGCTGTCCTGGAACTCACTCTGTAGACCAGGCTGGCCTCGAACTCAGAAATCCGCCTGTCTCTGCCTCCCGAGTGCTGGGATTAAAGGTATATGCCACCACTGCCTGGCAAATAAAACTATTTCTTAAGACGAAACAAAGGGGAAAAAGAAAACTTGTGGGAGTCGGCTGTGTTGTCGTTCAGCGCTTGGGAGGCAGAGGCAGGTAGATCTTTGTGAGTTGGAGGCCAACCAGGGCTACAAGAACGACCCCTTCTGAAGAAACAACCAAAAAAGGACACACTGTCTGAACTGGAGAGATGGCTCGGGTTGAGTGCCTGCTATTCCTCTAGAGGCCCCAAGGACTGTTTTCAGCTCCCACACAGGCAGCCCACAGCTGGCTGGATCTGGTGTCTCCTGCTGGAACCAGCACATACTCGCAGAAAGACACAGATTAAAACACCTCGGGTGGTGGCACACACCTTTAATCCCAGCACTCACAAGGCAGCCTGGAGATCTCTGATTTCTAGGCCAGCCTGGTCTACAGAGTGAATTCCAGGGCAGCCATAGTTATTAGAGAGACCCTGTCTCAAAAATTAAACCCACAAAACCTCAAATCACCTTATATGAGGTTTGCAGCAACTGTTTACTCCAGTCCTCTTGGTCCCTATAACGTCCTTACAGTTCCTGACACCCACCCAGATTGTAAGAAAAAGAACGTTAAAGATTTGAATACCAAGTGCTGGTGCTGGCACCACCTTGGAAGGCTTCTTAGCCAGGTCTTCTAATGCCCAGGGCATGTCCTGTGACTCAGGGCCACCTGGGCCTGTCCCCAGTGGAAGGAGACACTGTGTCTGCGAGGAGACAAGTACAAACAGTGGTTGATTGAGTGGTTTTATTTGTTTGTTTGTTTGTTTGTTTTTTACAATGATTAAGTTGAAGAATAATTGACGTGTTCATCTGCAGAGTGCAGGCTGGGGTGGAATGGCAGCTTTGAAAAGAAAGAAGTCTCAGGTATATCTCTACCATGGCAGGGAGATGCTGAGCGAGAGGCTGGCAGGCAGTGTCGCATCCACGCTGTAAAGGCCAGCCTTGAGGGTGAGAAGGCAAGATGGAGCCTCTAGGAATGTCTCATCCAGCCTGGCCTGGTGGGATATTGCTGGAGATTTATTCATGTGGTGTTTTTACTTAAGATTGATTTTGATGTAGGTGTCTGTGAGTGTATGTTACCTGGCGTGGGTGCTAGGAACTGAACCCAGGTCCTGTGAGCCTTCTCTCCAACCCCTCACGCTGTTTGAATCTAAGACCCCAAGGCTTCAGGTGTGTGTGTGTGTTGGATGAAGTTATCACTCAAAAGGAGGACGTGCTAAGGGAAAGTGGCTGAGAGAAAAAGTGGGAAATGCACGGTTGGATGGTGACAGGCCTGCAGGTGCAGCCACAGGTGGATTGCAAGGTTCAGGTCTACCCGACCATGCCATCAGATTGTACAGAACATAAGAACTGGGTACGTTGTGGATAGAACTCAGGGGCAGGCTTCCTGCCTTACACTTGTGGAGCCCCCGTCCAGTCCTTCCTTAGTACTGGGGAAAGCCTGTGTGACTAGTGATGGGGTCACATATGGGACAACTCTGTGGACAGATGATGCTGTGCTGCCCTAAGGTGAGATGCTGGTGTGCTCTGATCCTACAACTTGCCCCTTCTGGCTCCTCTGGTGTGTTTAAAGCTCTCCTTTCAGTTTCCCAGAAAGTCCATTTTCTGGTAGGCATCTGGTAGGACGCGCAGCCTCATGCCGTCATATTTTTTACTGTTTTCCAG
Seq C2 exon
ATAAACAGTCTAACAACGCTTCCTTGGAGACTCTGTTAGCGCTTCTTCAAGCGGAAGGGGCAAAGATTGAGGAGGACACTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000066278:ENSMUST00000040967:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.179
Domain overlap (PFAM):
C1:
PF072008=Mod_r=FE(38.0=100),PF101464=zf-C4H2=PU(14.7=55.2)
A:
NA
C2:
PF072008=Mod_r=FE(18.0=100),PF101464=zf-C4H2=FE(12.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
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