MmuINT0075532 @ mm9
Intron Retention
Gene
ENSMUSG00000067341 | H2-Eb2
Description
histocompatibility 2, class II antigen E beta2 [Source:MGI Symbol;Acc:MGI:95902]
Coordinates
chr17:34471154-34472830:+
Coord C1 exon
chr17:34471154-34471435
Coord A exon
chr17:34471436-34472719
Coord C2 exon
chr17:34472720-34472830
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-H2-Eb2:NM_001033978:3
Average complexity
IR-S
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
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: