MmuINT0075561 @ mm10
Intron Retention
Gene
ENSMUSG00000024448 | H2-M10.1
Description
histocompatibility 2, M region locus 10.1 [Source:MGI Symbol;Acc:MGI:1276522]
Coordinates
chr17:36325568-36326155:-
Coord C1 exon
chr17:36326078-36326155
Coord A exon
chr17:36325838-36326077
Coord C2 exon
chr17:36325568-36325837
Length
240 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
TCAATGTGCACCACCCACAGGAT
3' ss Score
6.75
Exon sequences
Seq C1 exon
AGAGGATGAGGAACACTGGACCCTGCACACTCCTGCTCCTCCTGATGGTGGCCTTGGACCTGAACCACTATTGTGCAG
Seq A exon
GTGGGTGCGGGACTGGAGGGAATTGGCCTTTGGGGGAGCAGGAAACAGCACCTGGAATCCTTGTCTCTGAATCTTCTCCCTTGTCTAACGAGACCATTCCTGATCCCCTAGCTGGATCACCCCTGACCCTCGCCTGCATCTCAGGTCCACAGACACACACCACCACCCCTGCTCTGCTCTCTTCCAAACTGCTCTGGGTCCAGGCTGAAGAGGCAGGGTCTCAATGTGCACCACCCACAG
Seq C2 exon
GATCACACTGGCTGCAGACTTTCAACATTGTAATTTTGGAGCCTGGCATGTTGGAGCCCCGGTTCATCCAGGTCAGCTATGTAGACTCCATACAGTATCAGGGATTTGACAGCAAAGACCCATCTGCAGGGATGCAACCTCGAGCTGCATGGATAGAGCTGGAGCCACCTGAATATTGGGAAAAGGAGACATCAAGAGTTCTGGAATTGTCACAGGTAGAGAGACAAGTTCTTCGGTTAATGGTGAAAAAAAATGGACACAAAATGGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024448:ENSMUST00000025322:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.009
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(7.4=47.8)
A:
NA
C2:
PF0012913=MHC_I=PU(50.3=98.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGATGAGGAACACTGGACCCT
R:
ACCTGTGACAATTCCAGAACTCT
Band lengths:
292-532
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