MmuINT0075672 @ mm10
Intron Retention
Gene
ENSMUSG00000053835 | H2-T24
Description
histocompatibility 2, T region locus 24 [Source:MGI Symbol;Acc:MGI:95958]
Coordinates
chr17:36014800-36015656:-
Coord C1 exon
chr17:36015384-36015656
Coord A exon
chr17:36015076-36015383
Coord C2 exon
chr17:36014800-36015075
Length
308 bp
Sequences
Splice sites
5' ss Seq
CTGGTAATG
5' ss Score
5.67
3' ss Seq
TGTCTGTCTGTCTACGGCAGACC
3' ss Score
8.85
Exon sequences
Seq C1 exon
GCCCTCACACCCTCCAGTTCACATACGGCTGTGAGATGCGGTACAACAGGACCACAGGGCATTGGCAGTATGGCTACGATGGCAGTGATTACCTGACCTTGGACTTGGGCTCTATGCAATATATAGCAGCCACCTTCATTGCTGGCTACACCAAGCGCAAGTGGGAAAACAATGAGTACTGGCTGGAGAAAGAGAAGACCTACTTGGAGAAGGAGTGCATCCTATGGCTGCAGAGATACTTAACCATGGGAGGAAAGAACTTTACCCGAACTG
Seq A exon
GTAATGACCCCCTCCAAGCCCAGCCCTCCTCCCTGGGGTCAGCAGGGTAAAAGCTCACTCTGTAGTTGGTAGGGAGTTGCGGCAGCCACTCCGGCACAGGAATGTAGGCTATCTGGGTGGGTTCAGTGTGCTGGGGGTAGTTTCCCACAAGCAGATGTGAACTCTTTTGAGTCTCCTAGACCGTGGTCACCTACCACCTCTGAGGTCTCTACTCTCTAAATGTGTCCCAAGGGTACTTGGGTGTGTCTCCTACTTCTGCCTTTTCCACTGGAGACACCTGAGTCTGTCTGTCTGTCTGTCTACGGCAG
Seq C2 exon
ACCCTCCAAAGACAACAGTGACTCATCAGTTCAAACCTAAAGAAAACGTCACCCTGAGGTGCTGGGCCCTGGGCTTCTACCCTGCTGACATCACCCTGACCTGGCAGTTGAATGGAGAGGAGCTGACCCAGGACACGGAGCTTGTGGAGACGAGGCCTTCAGGGGATGGGACATTCCAGAAGTGGGCAGCTGTGGTGGTGCCTTCTGGAGAGGAGCAGAGATACACATGTCATGTGCAACATGAGGCACTAACGCAGCCCCTTGTTCTGAAATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000053835:ENSMUST00000113760:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.022 A=NA C2=0.172
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PD(46.5=94.6)
A:
NA
C2:
PF0765410=C1-set=WD(100=92.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGTGAGATGCGGTACAACA
R:
GGGTGATGTCAGCAGGGTAGA
Band lengths:
342-650
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