MmuINT0119574 @ mm10
Intron Retention
Gene
ENSMUSG00000025728 | Pigq
Description
phosphatidylinositol glycan anchor biosynthesis, class Q [Source:MGI Symbol;Acc:MGI:1333114]
Coordinates
chr17:25935003-25937462:-
Coord C1 exon
chr17:25936764-25937462
Coord A exon
chr17:25935135-25936763
Coord C2 exon
chr17:25935003-25935134
Length
1629 bp
Sequences
Splice sites
5' ss Seq
CCGGTAGGT
5' ss Score
9.39
3' ss Seq
AGCCCTTATATTCCCCCCAGGCT
3' ss Score
8.19
Exon sequences
Seq C1 exon
GGCCCCCAGCATGGTGCTCAAGGTCTTCTTCCCCACGTGCTGTGCCTCGGCAGACAGTGGCCTGTTAGTGGGACGATGGGTTCCAGGACAGAGCAGTGCTGTGATCCTGGCCGTGGTGCACTTTCCCTTCATCCCCATCCAAGTCAAGGAGCTCCTGGCCCAGGTGCAGAAGGCCAGTCAAGTACCAGTGGCTGTGCTAGGGACCTGGTGCCACCGTCAGCAGGAACCGCAGGAGAGCCTGGGGAATTTCCTGGAGGGCCTGGGCACCATCTTCTCCCATGACCCCTGGTTGCAGCTCTGCCGGGAGAGGGGTACCAGACTCTGGAGCTGCAAGGCCACTTACCCGCAGATGTCTAACCCTCTGGACATGCACCCCGAAGAGCAGGTCATGCTCATCTTCTATGATCAGCGCAAGCTGCTGCTCTCCTGGTTGCATCCGCCTCCAGTCCTGCCTGCCTGCCAGATGGGAGACACCACAGCCAGCACCGGAGGCCTAGCTGACATCTTTGACACAGTGGCACGCAGCGAGGTGCTCTTCCGAAATGACCAATTTGATGAGAGACCCGTACGCCTGAGCCACTGGCAATCAGAGGGAGTGGAGGCCAGCATACTTGTGGAGTTGGCAAAGCGGGCCTCTGGGCCTGTCTGCCTGCTGCTGGCTTCTCTGTTGTCCCTGATCTCAGCAGCTAGTGCTTGCCG
Seq A exon
GTAGGTGCCTCAGATGGGAAAGGTAGGACAAGAAATTGGACCCTTGAGAACCACAGGCTCTCCCTTCAGTGTAGTGGCATTGAGAGCCAGAGGGTCCATCCTGAGGCTCATGTTCCTGGGACTCAGCTCTCCTCTTACCTCCCTCCCTTTGCATCTCAGAGGATGTCCTAGTAGAGGCTGCTATTCCTGAAGACTGTGTGAGGCCCATCCACTTGGGTATACTATGGGTCGCAGACAGTTCAAGCACCGAGAAGAAATCTGGTGAACACAAAACTGGGTTATTGCACTTAAAAAAAAAATTACAAATAGCCAGACAGTGGAGGTGCACACCTTTAATCCCAGCACTTGGGAGGCAGAGGCAGTTGGGTTTCTGAGTTCGAGGCCAGCCTGGTCCACAAATTAAGTCCAAGACAGATCTCCTGGACTGGGGTTATAGATGGTCCTAAGCCGTCATGTGAGTGCTGGGAATTAACCCTGAGTCTTTATAAGAGCAGCAAGTGCTCCAGATCATCATCTCTTCAGCTTAGCTTACGATTGTTGTGTGCTTGGGACAGGGTCTCAGCTGTATAGCCTTAGCTGGCCTGGAACTCACTATGTGGTCTAGGCTAGCCTCAAACTCTATGTCGGAGTGCTGGGATTAAAGGCCAATATCTGCCCCACCTGGGTTGACCCATGAGGACACAGAGCTGCCCATTCCCCTTCTTTTCTGTTTTTCCCACAGCTGGCTTCAGGTAATAATGCAAAATGGAAAAGTCCTTAAGTCCTCAGAATGCTGAGTAACACTAGGCTCTTTTTTTGTTGTTTGTTTTGGTTTTTCGAGACAGGGTTTCTCTGTGTAGCCCTGGCTGTCCTGGAACTCACTTGGTAGACCAGGCTGGCCTCGAACTTAGAAATCCGCCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGCGTGTGCCACCACGCCCGGCGCTGCTGCTCTTTCCTTGACCCTGCTCTGTTTCACACAAGCCAATTGCTATCAGGTATTTTCTTCTTCCTTGGCTTGAAGACATCTCTTACTATGTGAGCATCTGTGGAAATGTCTCAATGCTTCCTTTGTGAGGAATTCAGTCTTACTGGAAAGCCCAGGAGAACCTTGCTGAGCTGGGTTACCGTGTAGTAGGCAGGGCAAGTCTTGGGTGGATGAGAGATGACCTAGTCCCCCCCTCCCCCTCTACTTTTTTGGCCATCTTTCGGGGAAAGGGTAGCCCTTACTAAGCTGATCTATTTGCCTCAGCCTCCTGAGTCCTGGGATTAAAGGCACGTGCTACCACGACTGGCTATCTTTTCAGCTATCTTGACACTCATCTTTGCATTGGCTGGGGAGCTCAGGTATGCCTGAGGCTCTGCGAGGGGTCCAGCTCTGTAGTAGCAGTAAGCACGGCTGGGGGTTGGGGGCAGGAAGGTGCTGTGCTTTTCACATCTATGCATCCGTGCTTGGCTGTGTTGGTCTTCACATTTGCCTGGGCCCTGCTGAGCCTTCAAGTGGAACCAAAGGGCTCAGGGTGAGTGACTCCGGGTCTTCTTTCTAGAGTGAGAAACCTAGGCTGGGAAACCAAGGAACCTAAGGCTGGAGGTGTCAGTCTCAGCCCTTATATTCCCCCCAG
Seq C2 exon
GCTATGGAAGCTGTGGCCACTTTCCTTCATCAGAAGCAAGCTCTCCACTTGTGAGCAGCTCCATCACCGGCTGAAGCACCTCTCCTTCATCTTCAGCACGGAGAAAGCCCAGAATCCCATGCAGCTGATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025728:ENSMUST00000026823:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0502410=Gpi1=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGAGGCCTAGCTGACATCTT
R:
ATCAGCTGCATGGGATTCTGG
Band lengths:
342-1971
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