MmuINT0075532 @ mm10
Intron Retention
Gene
ENSMUSG00000067341 | H2-Eb2
Description
histocompatibility 2, class II antigen E beta2 [Source:MGI Symbol;Acc:MGI:95902]
Coordinates
chr17:34334209-34335885:+
Coord C1 exon
chr17:34334209-34334490
Coord A exon
chr17:34334491-34335774
Coord C2 exon
chr17:34335775-34335885
Length
1284 bp
Sequences
Splice sites
5' ss Seq
GGAGTGAGT
5' ss Score
6.05
3' ss Seq
TATCTGGCTTCCATCCTTAGGGG
3' ss Score
9.38
Exon sequences
Seq C1 exon
CTGAGCCCAAGGTGACTGTGTACCCTGCAAAGACACAGCCTCTGGAACACCATAACCTCCTGGTCTGCTCTGTGATTGACTTCTACCCTGGCAGCATTGAAGTCAGATGGTTCCGGAATGGCGAGGAGGAGAAGACTGGAGTTGTGTCCACTGGACTGATCCAAAATAGAGACTGGACCTACCAGACCCTGGTGATGCTGGAGATGGTTCCTCGGGGTGGAGAGGTTTACACCTGCCAGGTGGAGCATCCCAGCCTGACCAGCCCTGTCACAGTGGAGTGGA
Seq A exon
GTGAGTGGGAAACCCTTGACTCTGCAAATGCCCAACCACTGTGTAGTAGGAGTGACTTTCTCTGCCTGTTCCCTTTCTCTGACCCTGTAAATCCCTGCCTACCAGGGAAGCACATGGGTGACTCCACAAGAAAAATGAATACAATTTCCAAGTTACTAGCTTTTATTCCTCACATAGTTCAACATCTATGCCCGGTACACTTGCTGATTAAGATGGAGGCCTTGTGGAAATGTTCCCAAACAGAAAGTCACTGAAAAAGTAAAGATCTAGATAGATTGGGTGAAGGCACTGGGTGCCTTCTGCAGGGTTTGTCAATGAAGACACATGTCCCCAGTACAGTACATGGCATGAGCTGGGTTCTTTGTCAAGATTGGGACAAAATGAACCTATAAGGTTTATACATAGCCCCAGAAAGACACACTTCCTCATGGACAGCAGCTATTAAGAGCGAAGTGGAGTTGCCATCATAGGCTTTTCAGCCATCGTCCCAAGGTCTGTCGATGGTCAAATTCTCCAATTTCATTTCTTTATGATGTAGCAGACTCAAGTAAGATGCAAGTTCTCCACAGAACACTATTGACCGCAGAGCTGCAAATAACCTTGGACCAAGTTACTTAGGAACTCCAGGCAGCTGTCCCCGTTTTTATCATCTCACATGTGCAAGTTAGGTGACTCCCACCCCTGAACATGCTTGATATGCACAGGAGACCTGCAGGGGTACCCAAGAGTCATGGTAGCTTCTGCCACAGGACAATGGACAGGTGACACTGTCTCTCTTGGGACAAGACAGTAGCAGTAACATGATAAGGACAAAGGGCTACTCTAGCTTTGGGTCAGCATGTATTTGGTTCCTCTTGGTCTAGTTCCATTCTGAGTCTGTGTAATGGCTGACTCCCTCATTAGGCAATGGCTCAGAAAATGCCCAGGGGTACCACCGTTGGCATCTTGGTCTGAACTGCTTCTTCACTGCTGGATGTAGAGATGGACACAATTATCATGCATAACATACTATTGGACAACATTGTGGTATGCAACACTACCCAGCCACCAGCTGCAGCTGTTCAGTTAACAGGAATAAGTTCTCCAGTTTCATTACAAGAGATGGCAGAGATGGATAAAGCAACTCTAGATGTTTACATTCTCATCCATGGCTGCAGCCACTGTCTTCCACTTTTGCTGTGACTCTGAAATATCTTTCCAGAAGTGGCAAGTTCTAACTACCCCAGTGCTCTGATATCAGGTGTTGAATTTGTGATAAAACCCATATCTGGCTTCCATCCTTAG
Seq C2 exon
GGGCTCGGTCCACATCTGCACAGAACAAGTTGTTGAGCGGAGTCATGGGCATGGCGCTAGGTCTGTTCATCCTCGCAGTGGGGCTGTTCTTCTATTTAAGGAATCTGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000067341:ENSMUST00000050325:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0765410=C1-set=WD(100=87.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAGGTGACTGTGTACCCTGC
R:
CACTGCGAGGATGAACAGACC
Band lengths:
355-1639
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