MmuINT0094770 @ mm10
Intron Retention
Gene
ENSMUSG00000036646 | Man1b1
Description
mannosidase, alpha, class 1B, member 1 [Source:MGI Symbol;Acc:MGI:2684954]
Coordinates
chr2:25344968-25345594:+
Coord C1 exon
chr2:25344968-25345116
Coord A exon
chr2:25345117-25345405
Coord C2 exon
chr2:25345406-25345594
Length
289 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
3' ss Seq
CTCTGGTGCTTTTACGCTAGGAA
3' ss Score
6.72
Exon sequences
Seq C1 exon
AATTTAAGCAAGCCAGGAAATGGGTATCAGAGAACTTAGACTTTCAGAAGAATGTTGATGTCAACCTGTTTGAGAGCACCATTCGCATCTTAGGGGGCCTGCTGAGTACCTACCACCTGTCGGGGGACAGCCTCTTCCTGACCAAAGCT
Seq A exon
GTGAGTGTTCGTGGCTAGACTTCCTGGGACCTGGTGTGTGGAATTGGAGAAATTATTTCTGCTTTCCTCTTCTAGTGCATTCGAGTTTCTTCTGCATTGCTGTGTAATGAGCTGCCGTCGTACTATTTTTTGCTGCTGTGATGTATAGGGAAGTTCTTGATGCTGATGCTTTGCCTAGTTTTGCTGTGTAATAGTTGTGCCACCAGAATATGCTTCACTACTTGGTTGGGCGCAGATGGGGAAATGTGGAAAACCACTCTAACTTGGATCTCTGGTGCTTTTACGCTAG
Seq C2 exon
GAAGATTTTGGAAAACGGCTGATGCCTGCCTTCACTACGCCCTCCAAGATCCCATACTCTGATGTGAACATTGGCACTGGATTTGCCCACTCACCCCAGTGGACTTCAGACAGCACGGTGGCAGAAGTGACGAGCATTCAGTTGGAGTTCCGGGAGCTCTCTCGTCTTACTGGAATAAAGAAATTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036646:ENSMUST00000042390:7
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=0.000
Domain overlap (PFAM):
C1:
PF0153215=Glyco_hydro_47=FE(11.1=100)
A:
NA
C2:
PF0153215=Glyco_hydro_47=FE(14.1=100)
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:
CCAGGAAATGGGTATCAGAGAACT
R:
AGTAAGACGAGAGAGCTCCCG
Band lengths:
308-597
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