MmuINT0075562 @ mm9
Intron Retention
Gene
ENSMUSG00000024448 | H2-M10.1
Description
histocompatibility 2, M region locus 10.1 [Source:MGI Symbol;Acc:MGI:1276522]
Coordinates
chr17:36462000-36462782:-
Coord C1 exon
chr17:36462513-36462782
Coord A exon
chr17:36462276-36462512
Coord C2 exon
chr17:36462000-36462275
Length
237 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
GCTGAATGGGGGTGGGGCAGGTT
3' ss Score
-1.04
Exon sequences
Seq C1 exon
GATCACACTGGCTGCAGACTTTCAACATTGTAATTTTGGAGCCTGGCATGTTGGAGCCCCGGTTCATCCAGGTCAGCTATGTAGACTCCATACAGTATCAGGGATTTGACAGCAAAGACCCATCTGCAGGGATGCAACCTCGAGCTGCATGGATAGAGCTGGAGCCACCTGAATATTGGGAAAAGGAGACATCAAGAGTTCTGGAATTGTCACAGGTAGAGAGACAAGTTCTTCGGTTAATGGTGAAAAAAAATGGACACAAAATGGATG
Seq A exon
GTGAGTCACCTCAGCTCTGAGGTCATGACATCTCAATGTCCTCATGATCTGACCCCAATAAGCTCGACTCTAGGTCCCCAAGTCAGAGATGCATCCATAGACAAAGGGACCCCTGGAGACCTTAGACCCAAGAGAACCATAGATTGTGACCTGGTTAGGGGTTTAGTTGGGGACAAAATCCCGGGGCGGGGGGGTAGAAGCCTCACAGTGACCAGGGGCTGAATGGGGGTGGGGCAG
Seq C2 exon
GTTATCACACCCTGCAGGAAGTATATGGCTGCAATGTGGCTAATGATGGGAGCTTCCTCGGCGGTCACTACCGACTCACCTACTATGGCTATGATTACTTAACCCTAAATGAGGACCTGAGCTCTTGGACTGCAGAGGGCAAGGGAGCTCAACACGCGAAGAGCAGGTGGGAGGATGCAGGTGAAGCAAAACGGAGGAAGACTTACCTGCAAGGGGAGTGTGTACAAAGGCTTCTTAGATACCTGGACCTTGGAAAGGAGACCTTGCTGTGCTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024448-H2-M10.1:NM_013544:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.011 A=NA C2=0.065
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
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGCAAAGACCCATCTGCAG
R:
AGTCCAAGAGCTCAGGTCCTC
Band lengths:
293-530
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: