MmuINT0075635 @ mm10
Intron Retention
Gene
ENSMUSG00000091705 | H2-Q2
Description
histocompatibility 2, Q region locus 2 [Source:MGI Symbol;Acc:MGI:95931]
Coordinates
chr17:35342600-35343388:+
Coord C1 exon
chr17:35342600-35342869
Coord A exon
chr17:35342870-35343112
Coord C2 exon
chr17:35343113-35343388
Length
243 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
CTGACCACGGGATCCCGTAGGCT
3' ss Score
3.87
Exon sequences
Seq C1 exon
GCTCACACTCGCTGCGGTATTTCACCACCGCCGTGTCCCGGCCTGGCCTCGGGGAGCCCCGGTTCATTATCGTCGGCTACGTGGACGACACGCAGTTCGTGCGCTTCGACAGCGACGCGGAGAATCCGAGGATGGAGCCGCGGGCGCCGTGGATGGAGCAGGAGGGGCCGGAGTATTGGGAGCGGAACACACAGGTCTCCAAGGAAAATGAGCAGAGTTTCCGAGTGAGCCTGGGGACCGCACTGAGCTACTACAACCAGAGCAAGGGAG
Seq A exon
GTGAGTGACCCCGGGTCGGAGGTCACGACCCCTCCACGTCCCCACACAGGAGCCCAGAGACCTCCCGCATCCCAAGTCCAAGGTTCGGGAGCAGAACCCACCTGGAATCGGTTTCCCTTTCAGTTTGGTTGAGCCCACAGGTGGGCGGGGCCGGACAGGTAGTCTGGGGGCGGGAGCGGGGCGGGTGGTGGCGGCCTGGGCCGGGTGGGGAGGGGGTGGGGAGCTGACCACGGGATCCCGTAG
Seq C2 exon
GCTCTCACACTCTCCAGTGGTTGGTTGGCTGTGACCTGGGGCCAGACGGAAGCCTACTCCGAGGGTATGAGCAGTCTGCCTACGATGGCCGCGATTACCTCGCCCTGAATGAGGATCTGATAACGTGGACAGCGGCGGACCTGGCAGCACTGAAGACCCGAAGCAAGTTGGAGCAGGCTGGTCTTGCAGAGAAGCGCAGGGCCTACCTGGAGGTCGATTGCTTGACGTGGCTCCGCAGATACCTGGAGCTCGGGAAGGAGACGCTGCTGCACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000091705:ENSMUST00000074806:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.264 A=NA C2=0.011
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(50.3=98.9)
A:
NA
C2:
PF0012913=MHC_I=PD(49.2=94.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
GAGCCCCGGTTCATTATCGTC
R:
CAGACTGCTCATACCCTCGGA
Band lengths:
295-538
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