MmuINT0075621 @ mm10
Intron Retention
Gene
ENSMUSG00000079507 | H2-Q1
Description
histocompatibility 2, Q region locus 1 [Source:MGI Symbol;Acc:MGI:95928]
Coordinates
chr17:35320558-35321090:+
Coord C1 exon
chr17:35320558-35320625
Coord A exon
chr17:35320626-35320820
Coord C2 exon
chr17:35320821-35321090
Length
195 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
TCACCGCGCGCCGCCCCCAGGCT
3' ss Score
8.13
Exon sequences
Seq C1 exon
GGCAATGGCACTGGGAAGGCTGCTCCTGCTGCTGGCAGCCGCCCTGACCCTGACCAAAACCGGAGCGG
Seq A exon
GTGAGTGCGGGGTCCGAAGAGAAACGGGCTCTGAGAAGAGGGTCGCGGCCGGCACCTGGGATGCTGCGTCCCCGCGTCGCCCACCAGACCCTCCGCCCCTTCTCCACCCACGTCCCGCGCCCTGCTCCCCTCTCGGACCACGGACCGCCGGGAGTCTCGGGAGGAGGTCCGAGTTTCACCGCGCGCCGCCCCCAG
Seq C2 exon
GCTCACACTCGCTGCGGTATTTCGAGACCTCGGTGTCCCGGCCCGGCTTCGGGAAGCCCCGGTTCATCTCTGTCGGCTACGTGGACGACACGCAGTTTGTGCGCTTCGACAGCGACGCGAAGAATCCGAGATATGAGCCGCGGGCGCCGTGGATGGAGCAGGAGGGGCCGGAGTATTGGGAACGGAACACACGGAGAGTCAAGGGCAGTGAGAAGAGATTCCAAGAGAGCCTGAGCACCCTGCTCAGCTACTACAACCAGAGCAAGGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079507:ENSMUST00000073208:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.165
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(0.1=0.0)
A:
NA
C2:
PF0012913=MHC_I=PU(50.3=98.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAATGGCACTGGGAAGGCTG
R:
GTTCCGTTCCCAATACTCCGG
Band lengths:
254-449
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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