MmuINT0072821 @ mm10
Intron Retention
Gene
ENSMUSG00000005823 | Gpr108
Description
G protein-coupled receptor 108 [Source:MGI Symbol;Acc:MGI:1925558]
Coordinates
chr17:57246764-57247641:-
Coord C1 exon
chr17:57247511-57247641
Coord A exon
chr17:57246884-57247510
Coord C2 exon
chr17:57246764-57246883
Length
627 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGC
5' ss Score
4.69
3' ss Seq
GTGTCTTTGGTTTCCTGCAGGGG
3' ss Score
11.2
Exon sequences
Seq C1 exon
CAGAGATGGCAGTGAGCGAGAGGAGGGGGCTCAGCGGCGAGAGCCCAACGCAGTGCCGATGGGGATACTTGTCGCTGCTGGTGCTGACGCTGAGCGGCTGCTCAGGCCGTATCCACCGGCTGACTCTCACA
Seq A exon
GTGAGCCCCGCAGGCTTGGCCTCGTTGTCTCCCCCCATAGCTCCGCCGGTGGATGGAGCAGCCGCACCCCCCACTGCAGGCCGCTAGTGGTCTCGTCCCGGGGTCTCCCCGCCCGGTGCTCGTAATGGGTTGGCCTGGCTTAGAGGGCGGGGCTTCATCTCCTGGGACCCCTGACTCCTGGCGCTTAAACTTTCAGGGAACACTTGGTAACAACCATAGGACCTGGGAGGAAGGGGTACCACCTGGTAGGATCTTCCTGGAATTCACTTAGGGGAGTGACAGGAGACTACTTTCAAAATTTAGCCCAGATAGAATCGAAAACTTTTCTGGAAAGTCGAAACTAGTCACACCAGCCTATGTAGCCCGCTCTCGGGGTGGTGCACGTCTATATGGGGACTGTCATGGGGTTGCCAGGGTTTCACCCCATGGACACACAACCCCACCCTCTAGCTGCCTCGGACTGAAGTAGGAAAATGTCACCAGCACCAATACGATGTACCCAGGAAGGCTTTCTCACATGCTCCTGTCCTGAATAAAAATGTATAGAGACGCTCAGGGAAACACGCCGTCGTGCTGGACTTGGTGGGGAGAGTGCCCTTGTGCCACTGTGTCTTTGGTTTCCTGCAG
Seq C2 exon
GGGGAGAAGCGAGCTGACATCCAACTGAACAGCTTCGGATTCTACACCAATGGTTCCCTGGAAGTAGAGCTGAGCTTACTGCGACTCAGCCTCCAGGAGACAGAAAAGAAGTTGCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000005823:ENSMUST00000005975:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.095 A=NA C2=0.025
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CAGTGAGCGAGAGGAGGGG
R:
TGGCAACTTCTTTTCTGTCTCCT
Band lengths:
239-866
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