MmuINT1020343 @ mm10
Intron Retention
Gene
ENSMUSG00000067212 | H2-T23
Description
histocompatibility 2, T region locus 23 [Source:MGI Symbol;Acc:MGI:95957]
Coordinates
chr17:36030371-36030694:-
Coord C1 exon
chr17:36030578-36030694
Coord A exon
chr17:36030401-36030577
Coord C2 exon
chr17:36030371-36030400
Length
177 bp
Sequences
Splice sites
5' ss Seq
TAGGTAGGA
5' ss Score
7
3' ss Seq
CATGGCTTTTCTTCTCACAGGTG
3' ss Score
11.57
Exon sequences
Seq C1 exon
AGCCTCCTCCATCCACTGTCTCCAACATGGTAATCATAGCTGTTCTGGTTGTCCTTGGAGCTGTGATCATCCTTGGAGCTGTGGTGGCTTTTGTGATGAAGAGGAGGAGACACATAG
Seq A exon
GTAGGAAAGGGCAGGGTCTGAGTTTTCTCTCAGCCTCCTTTTGCAGTGTGCTCTGCTCCTTAATGGGAAACATAGCCACACCCACATTGCTGCAGTCTCCAACTGGGTCAGCTGTCAGTTCCGGGAACTCCCTAGGGCTGGTGTTTCTCTGGTCTCTCATGGCTTTTCTTCTCACAG
Seq C2 exon
GTGTAAAAGGATGCTATGCTCATGTTCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000067212:ENSMUST00000102678:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCTCCTCCATCCACTGTCTC
R:
CTAGAACATGAGCATAGCATCCT
Band lengths:
146-323
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