MmuINT0094762 @ mm9
Intron Retention
Gene
ENSMUSG00000036646 | Man1b1
Description
mannosidase, alpha, class 1B, member 1 [Source:MGI Symbol;Acc:MGI:2684954]
Coordinates
chr2:25204091-25204887:+
Coord C1 exon
chr2:25204091-25204211
Coord A exon
chr2:25204212-25204689
Coord C2 exon
chr2:25204690-25204887
Length
478 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGC
5' ss Score
9.26
3' ss Seq
AGGAGATACTTTGATTCCAGGAC
3' ss Score
1.84
Exon sequences
Seq C1 exon
GTTGCTGGAAGACTATGTTAAAGCCATTGAGGGGATAAAAGCCCATCTGCTCCGGCAGTCTCAGCCCAGAAAGCTCACCTTCGTGGGAGAACTTGCCCACGGCCGCTTCAGTGCCAAGATG
Seq A exon
GTAAGCTGTGTGGACTGGCAGAGCCTTTGGGAAACTGCTTCTCTCTGTGTGACTTTCAGGATCTTAGCTTTTGTTTGCCAGTAACAAAGAAATCTAGTCATCAGCTGGGTGCCATTGACCTTTGCTGCCTGGCTTGACCTATTCTCATGACAGCCCAAGCAGAGGCCCCACATACCCTGAAGTAGCTGGTGCAGCTACCTTCATTGTCCTCTCTGTGGCTCCTGAAGTGCAGCAGATCTCTGAAGGTGTTTGTAGGCAGGTTGATGGGACCTGGAAAGCTGGGTCGTTAAGGCCCCAGTAAGAACCTGCACTGTAGTTTTGTCCCTGGACTCTAGGGCACAGAGTGCCTTGCCTGGCCCTGAGTCTGCTGAGCTGCACTGCCCCTGGGGCTTCTTTCCTCCAGTTAGGTTGACTGGTCTTGATACTGGCCAAGCAGCATGGGCCTAGGCCCAAATGTGAGGAGATACTTTGATTCCAG
Seq C2 exon
GACCACTTAGTGTGCTTCCTGCCGGGGACGCTGGCTTTGGGTGTCCACCATGGCCTGCCAGCTGACCACATGGATCTAGCTCGGGCCCTCATGGAGACCTGCTACCAGATGAACCAACAGATGGAGACAGGTCTGAGCCCTGAGATTGCACATTTCAACATGTACCCTCGGGCAGATCATAAAGATGTGGAGGTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036646-Man1b1:NM_001029983:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.015
Domain overlap (PFAM):
C1:
PF0153215=Glyco_hydro_47=FE(9.1=100)
A:
NA
C2:
PF0153215=Glyco_hydro_47=FE(14.8=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:
GTTGCTGGAAGACTATGTTAAAGCC
R:
TTGACCTCCACATCTTTATGATCTGC
Band lengths:
318-796
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: