MmuINT1034952 @ mm10
Intron Retention
Gene
ENSMUSG00000043614 | Vps37d
Description
vacuolar protein sorting 37D [Source:MGI Symbol;Acc:MGI:2159402]
Coordinates
chr5:135072900-135074476:-
Coord C1 exon
chr5:135074394-135074476
Coord A exon
chr5:135073984-135074393
Coord C2 exon
chr5:135072900-135073983
Length
410 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
CCCTCCTGGACGCTACCCAGGTC
3' ss Score
4.65
Exon sequences
Seq C1 exon
AGAAGAGCATGCATCGCTGGAGCCCCCAATGTGCGCTGGGCTGGCTGCAGGCTGAGCTGGAAGAGGCTGAGCAGGAGGCTGAG
Seq A exon
GTGAGGGGTAGAGGTGGCTGGGGCCAGGTCAACAGGGAGGGAAACCAGTCTCATTGGGGTCTTCTCTGAGAAACCCTCCGTGATTGCTTCCAGAACTTTCTGGACTCCGCTCAGGACGGCAGAGTTTGCTGTCCTAGGGACGTCTACAGACACTGGAGGGCAGGGTCGGCTGAGTAGTAAGGCCCATTTCTCAGGGCTGGGTTGGGAGCAGGTCCTTAAGTGTGTTGAAGGGTACGGGACAGCCCTCTTTGTGGAAATAAGGTGGACACCTGTCCAGTCTGGGTAACCCAGAGGCTGGGCCATGTTGGAAGCTCCGGGCCTCTGCTGGCTGGTCACCGTGGGGAAGAAGGAGTCAGGCTCTGATCAGATTGCCTCCCCAACTCTCCCTTTCCCTCCTGGACGCTACCCAG
Seq C2 exon
GTCCAGATGGAGCAGCTGCTGCTGGGGGAACAGAGCCTGGAGGCCTTCCTGCCAGCCTTCCAGAGGGGCCGTGCCCTGGCCCACCTGAGGCGGACACAGGCCGAGAAACTACAGGAGGTGCTGAGGCGTCGAGAGCGCTCTGCCCAGCCGGCCCCCACAACTGCTGCTGCTGCTGCCGCCGCCGCCACCGCCATGGATCCCCCCAAACCCTTCCCTGCTGCTGCCGTCCTGCCCACTGGGGCCGCCCGGGGACCACCTCCAGCAGTACCCCGGAGCCTGCCCCCCTTGGACTCCCGCCCAGTGCCCCCAGTGAAGGGCTCTCCCGGGTGCCCTTTTGGCCCAGCCCCTTTGCTGAGCCCTCGACCCTCTCAGCCTGAACCCCCTCATCGGTAGGAGCCAGGGTGAGGCCTCCCAGCGGGGGTCCAGACAAACTTGATTCATGGCTCCTCCTCCTCCCCCACTGCCTGGGTGGGGGGAGGGGCAGGCCCCTCCCCCTAGCCTCAGGCAGGCCCAGGGCCCTGGAGGCTGAGCTGGGGAAGAGGGGCTCCCCGAAGAGGCCCGAAGAGGGCTGGGGGTGGGGTGGGCAGGGTGCTGGACTCCGGTCACCAAGGAAACTCTGCCTTTTTATTTTATTTTTTCGTCTCCCCGGCTGGGGCCTCCAGGGTGCCAAGCCAGGTCCTCAAATGAAAAAGAACTTTATGGGGTCCTGCTTCTTCCAGAGGGGTCTTGCTTGGGGGCCTGTCGCACCCTGCCACACTACTGGGCTCGAACAACTGCCAAGGCTTACTGGATTGTTCTCATATCCTGAGCTAACCCTTCCTGCAGTTTGGGGGCCCTCCGCCTAGGAGCCGGGCCCAGGGACACCCCCAATGGCCTTGCAGCTGGCCCTGGGGCAAGGTAGGACAGAGGCTTCTGACCTGCACAGGTGAGAGCCTGCCACCCCCAGGAAAGACCATTCTGTATTTTTCTGTCCCTGTCTCCTTAGAATGGAACCTTTTTGAGGGCAGGTCCTTGTCTTTGTATGTTCTGTCCCCAGCCCCGCCTCCTAGGGGCTGTCAATAAATGTGCTGATGGATGACGGTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000043614:ENSMUST00000067935:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.018 A=NA C2=0.812
Domain overlap (PFAM):
C1:
PF072008=Mod_r=FE(21.6=100),PF0307011=TENA_THI-4=FE(21.8=100)
A:
NA
C2:
PF072008=Mod_r=PD(24.0=27.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
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:
GAAGAGCATGCATCGCTGGAG
R:
GTACTGCTGGAGGTGGTCCC
Band lengths:
350-760
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