MmuINT0124091 @ mm9
Intron Retention
Gene
ENSMUSG00000039254 | Pomt1
Description
protein-O-mannosyltransferase 1 [Source:MGI Symbol;Acc:MGI:2138994]
Coordinates
chr2:32104135-32106082:+
Coord C1 exon
chr2:32104135-32104231
Coord A exon
chr2:32104232-32105989
Coord C2 exon
chr2:32105990-32106082
Length
1758 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
GACAGGTTCTGGTTCTGCAGGAC
3' ss Score
5.79
Exon sequences
Seq C1 exon
GCACGATGTCGCAGCCCCACTGAGCCCCCATTCTCAAGAAGTCTCCTGCTACATTGACTATAACATCTCCATGCCTGCCCAGAACCTCTGGAAACTG
Seq A exon
GTGAGTTCCGTGCTGGCCTGGGTGCAGCAGGGTCTCATGGCGGTCAGTGGGAGCACCTGCTCCCTACCTCAGAGTACCCAGAATGCCTCCTCAGATGAAGGGTTCAAATGGAAACTTGGATAAGAAACTTTGATTTAGCAAGTCTGAGATGTCCCAATGGGGAGCAGTCACCTCATCAGGCCGAGAGTCCTCTGGGCCTCAGGCATGGATTGGGAAAGTTCCAAGTGCTGTGTCTTCCCTGCCAGGGCCTTTCGGGTCAGGGCTGTTCCAGCTGCAGCTGCCTCATGGACTGTTCACTTTTTCACCCTCTGGCCTAGTTTCTTTCTGGTGCTGTGTCAAAAGCAACTTAGAGAGGAAAGGGTTAAGCTACAGTCCACCCCTCTTCGAGTCAGGGCAGGAACTTACTGAAACCGTGGAGGAGCACTGTCACTGGCTCACTCCCACATTCAGGCTTTCCTGCCCAGGATCTGCCCAGGGAATAGAACCACCCACAATGGGCTGGGCATTCCCACAGCAAGTAACAGCCAAGGTAACTCCCTCACAAATATGCCAGTAGGACAGTCTAATCTGGACAGCCCCTCAGTTGAGACTCCCTCCTCAAAAGTCTCTGGGCTGTGTCACATTGATAATTAAAGCTAAGTAAGACACCCTCCCACCACAGACATGGCAGCCTCCGCCACTCCTGTGTCCCAGGGGAAGCCTCCCAGCCAGTTCTTACCCATAGCCCACAGGAGCACAAGCAGTTTCCTGGTGAGGGCCTTGGCCATCAGAGGGCGATTTCACTGCGACAGTGTCCTTCTGGTGACAGTCATCTGCTCTCCTGGCTCCTGCTAGTGCTCCTTCCCTGTCCTGGCCCAAAGTGTTATTCTTGCCTGAAGCCTACTTCCTCGTCCTGGCCCAATGTCAAATTCCTACCAAGCGGTCCCAAAAGCTCTCCACAGCCTACCTAGGTAGCACCATGCCAGTTTACTGCCTTCGCCAGCACAGGTCTGTCTGGGGGGGCTGCTTTCATTGGCACACCTGACCCACCTTTACCTGTTTTCCCCTTGGATGTGCGGCACACTTCCATGGCCGTTTCCATCCTGCTGCTTAATCCCTCCCGAGTGGGCCTGACTGATAAAAGGCCGGCGTCCCTTCTCGTTGGAAGCTGTCTCAGGAGGAATGGCACTGAGTCTCACTGACCTCCCTGCCAGCTTGCTGCCAGTGGCTCCATTGCTGACCTGTGCCCCTGCCCCCTTCCTAGCAGCCCTTTGAGTACCACTTACCCATGTCAGATGGAGCCTCCAGAAAGGGGAGCAGGCCTCAGGAGCGGCTGCCTGGCCCAGGATGGCTTGTCTAGGAACCATCCCTGTTTTGGCTAGAGTTCTGTGTCCTCTTGTCTGAATAGGTATCTTTTGAGTCCCCGTGGCTAGCTCAAATGCTGTGTTGTAAAGGGCGTATGGGGTCATGGAGGGTCTGTAGTGCCAAGGACTAGCTAGCGACCTGTGCTTCCTTTGCTGGAGAGCTTAGCCCAGACCAAACTGATTCCATAGCTGTGTGACTGCTCCTCACTTATCTTAGGCAAAAGGCCAAGAAGCCATGGGTGTCTGGTCTTTCGGTAGCTATTTAACACGTACGATCTGCAAAGGGATGCACAAGTGACTAGTCATATTTAGGTTTATATGGTTTGTGGTGCTGGGGATGCAACCCAGGGCCTCACCAATGCTAGGCAAGTGCTCCACTGCCAGCCCCCCAGGCTGACAGGTTCTGGTTCTGCAG
Seq C2 exon
GACATTGTGAACAGAGAGTCCAACCGGGATACCTGGAAGACTATCTTGTCGGAAGTGCGCTTTGTACATGTGAACACATCCGCCATCTTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039254-Pomt1:NM_145145:13
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=0.000
Domain overlap (PFAM):
C1:
PF0281514=MIR=FE(18.2=100)
A:
NA
C2:
PF0281514=MIR=FE(17.0=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:
CACGATGTCGCAGCCCCA
R:
ATGGCGGATGTGTTCACATGT
Band lengths:
182-1940
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: