MmuINT0075525 @ mm10
Intron Retention
Gene
ENSMUSG00000060586 | H2-Eb1
Description
histocompatibility 2, class II antigen E beta [Source:MGI Symbol;Acc:MGI:95901]
Coordinates
chr17:34305877-34309860:+
Coord C1 exon
chr17:34305877-34306047
Coord A exon
chr17:34306048-34309590
Coord C2 exon
chr17:34309591-34309860
Length
3543 bp
Sequences
Splice sites
5' ss Seq
GACGTAAGT
5' ss Score
10.93
3' ss Seq
GATAATTCTTGTCTCCACAGCAT
3' ss Score
8.57
Exon sequences
Seq C1 exon
AGCAATGAGTAAAGAGAATAAAGTTACAGTCTGAAGCTTGCCTTCCCCTCTGACTCCTGTGTCTCCTCTCCTGCAGCATGGTGTGGCTCCCCAGAGTTCCCTGTGTGGCAGCTGTGATCCTGTTGCTGACAGTGCTGAGCCCTCCAGTGGCTTTGGTCAGAGACTCCAGAC
Seq A exon
GTAAGTGCACACCTCAGGTGCTGGGATGCTCGGGGTCGGGGAAGGAAGGAGCTAACATTCTCACTGTCCAGGCCAAGTCCCTCGGAACTATTGATATCTTCTGTGAGCATGCACAGTCCTCACATGAACTCTAAACTATGTCCCCAAACAGAAGCCTGGATGTTTGTGCTCTCAGATCTGTGTGAGAGGCCGCTGGGTATCAGCCATTGCTTTTCAAGTTTCTCCCAGTAACATCTACACCTGCGTCATATTCCTTTAGGGCCCTGAGAAGATCGATGAATCATGATGTTAAATTAACTTCTGGGACAGGCCCTGTCTTCACTGTGTTGAGATAAAGCCAGACAAAGTGGTTTCTCTTTAAAAATAGAACTTCCTATGTGTGTTTCTATTCTACTTTTTATGTATGTTTTCTGTTGTTTTGGGCCAAACAGTAAAATATTGATATCTAATCAGAAGATTTCTGTGGAGGTGTCATAGAGTCAAGGGGCAGTGAGGTCATCACAGGGAGATTCCTGTGCACCCTCTGCAGGCTGTGAGGCCACTGCCACACATTGCTACCTGTGAGGCGTAACCCAGGGCTTCCTTTTTCTCTCTCACTGACTCCAGTGCTTGTGTAGCCTGTTCCCATGCAGAACCTCTGCTGGGTGGTGGTTAGTGTTTCCCCTTGTCCTGGGCGCACACAGCAGCTAATGCTGAGGGTCTTAGATCTGGAAATGGGCATCTGTGGGTTATTCTAAAGAACTGGAAGTCCCTTCTGAGACCCCGGGGCAGGTTAGACTGGTTCAGTGTTCATGTTCTGAACATGTCTGCATATTGTTTTTCTTTAACATTCTCTGCCCTGAGCCCATGAAAAGGACCTGACTTCTCTTTGCATTGTATGATCCCTTCCTAGCTTCATGACCCACATATACATCACACACAGAAAAATCAAAGTCTGTGCTATGCACATGGGAGATAAAAGATGGGGTTATCAACACTGCTGAAACTGTGACCCTGGGCTGGAGAGATGGCTCAGTGGTTAAGGTCACTGGCTGTGCTTTCAGAGAGCCTGGGCTCAATTCCCAGCACTCACAGGGCAGCTCACCACTGTCTGAACTCCAGGAGTTCCAACATCTTCACACAGACACACATGCACACAAAATGCCAATGCACATAAAATGAAAATAAATAATTTAAAAAATAATCTGAGACCCCAGAATGCTGGGACTGTGGGCAAGCCCTCTGACCCCTTTTGGCTTTGGCTGCAATGTAAAATGTGGAAGAGATGATCTTTTTCATAGAGCTCTCTGAGGATTGGGAGAAATGGCCATGTAAAGCATTAGGGTCCTGCTGCCACACTGTGTGCTTCCTCTCTGTAAGCTGTTCTCAAAGGGCACATGGAAGCTTCCAGATTGCCTCTCATCTCATTGCCACCTCCCACAGACCAGAATCCTGCCCTTGCATCATTTGTCACAGGGACCATTCTTATGACTTCCAGAACTGTCCTTTTTTATTTTTTTTTCCATTTTGTCTTTTCTCCTCACTATTGTCTGTGTTGTCTCAAACACAGGGACAAGTGATTCCATCACTGAAATCTCTGTTAAATTCATGAGCCACAGTGATGACTGCTGCAAATACTTCTCAGGAAACACACCAAACTTCATCCTACTGAGCGTGAGGTTGATAATGGCTGGTGCTCGCCTTTATTTCAGTTGCTTTTCACAAATCTCTTGTACATTTCTGAGTTAGATTAAGTGTGAAGATGAAAAGACGTCCATCTAATGTGTCGTCCTCTATTGAGACTAGAGGAACTCACATGACTGACTGACCCACCAGATCCTGGAGACACGCCCTTACCTTACCTGGGGTCACATTTGGCATCTGATTTTAAAACGGTCTGGTTTTTGAATTCTCTGCATCTGTAATTCAGATAACAGATTGTAGCTCAGTATTGGGATCACGGTCTCAATTTCCAGAAACTTCTCCAGTTGTTTTCTCTCAGTGAAAAACAGACAGCTTCCATCAACTCCAAGGCTTTTGAGCTGGGGCTGCTTTTGATCCCCCAAGTCTCATCTCTCATTGTTGCCCCAATGTCCTGTGCTCTGTTATTCATGAACTCAGTGCTGGCATGAGGTGTTTGTTACCTCACCTAAGAGTTGCTCCTCTACTCCCTGTATCCCCTCTTCTGACATTTGCAGCCACCACCCTCTTCTGGCTCACATCTGTGACAGAACTTCACTTTCTGTCCCCAGGATGCTTCCCTTCCCCTCCTGTCACTCAAGACTTCCTGTTAATGGAACTCCATCCCCTCCCCGCTTCTTCCCCACCTTCACAGTTTAAAGCTCTGGCATGGAGGGAGGCCTCCGTTTCTCCTCTTAGGGTTTCCATGGGCAGCGCAGGCCTGCACAGGGCGGGCACTGAGGAAGATTTACTGTGTTCTGTGTGGTGTGTTAAGGAGCTTGAGCCTGAAGGGTGGGAGGGAGGTGTCTTCTGAGCTGGTGAGTCCTGGTCTCCAGCTTAGCTCCAGGTGGGGCAGGATCAGGAAGGGGTATACCCAATGGCTCCCTGTGTTGCTGGAATACATATATATGTTTGTGTGTGTGTGTGTATATATATATACATATACATATATATATATATATATATACACACACACATATGTGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTAACAACAATTAAGGACAAAAGAGGCCATGAATTTGAAAGAGAACATGGAGTTGTACATAGGAAGGTTCAGGGGGAGGAAAAGGAACAGGGGAAATGGTTGAATTATATGACAATCTCAAAAATAAGAGTCTTACTGGGTTTGAACCACACTTATAGGCAGGCCCCTAGCCCAGCAGTAGATGTTCCAATAGAAAGAAAATCCAGTGGTTTTCTTGCAGAATTTAAAAAAAATTATTTATTTATTTGCCTTACAGAGTTTTTGCTTATATATTAGGGTTTCAGATTTTGTCTGTTTTATTATTCCTTTTTGTTTGTATGTGTGTGTCTGTGTTTCTTATAGTTTTTTAAATCACTTTTTGTTTATTTCGTCCTGTTTGTTTGTTTGATTTGAGGTGGTCCTAATTGAGTATTTTCTAATGTGTAAGAGAACCAAGTGTGGCTTTAGGTGGTTGGAGAGGAGGCTATGAAGAGAATCTATTGTATGAGAAATTTTTATTTAAAAACCAAAGCAGAAGAATCCACTGGGAGATAAAATGGCCACTCGACCTCTCTGTCGCTTGGGACCTTGAGGTCATGATGAAGGTTAAAGAAATGAGGGGGAGAGGACTGAGGGAGGAGGACTGTCCAGTCCCACTGGGAATAGGGGGCGGGTTCCCCGAGTTCCTCCATCACTTCACTGGGTAGCACAGCTGTAACTGTCCAGCCTGGGGTGGAGCTGGGGCGTGCGTCCTTCTGCCCTGTTAGTTGTGGAGACCTCAGAAGTGAGCAGGGTAGAACTTGGGTCTGGTCGGTCATTCGGGCAGCTGAGAGGGACTCGGGCATCTTGTCGGCAGAGAAGAAGATAATTCTTGTCTCCACAG
Seq C2 exon
CATGGTTTTTGGAATACTGTAAATCTGAGTGTCATTTCTACAACGGGACGCAGCGCGTGCGGCTTCTGGAAAGATACTTCTACAACCTGGAGGAGAACCTGCGCTTCGACAGCGACGTGGGCGAGTTCCGCGCGGTGACCGAGCTGGGGCGGCCAGACGCCGAGAACTGGAACAGCCAGCCGGAGTTCCTGGAGCAAAAGCGGGCCGAGGTGGACACGGTGTGCAGACACAACTATGAGATCTCGGATAAATTCCTTGTGCGGCGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000060586:ENSMUST00000074557:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0096914=MHC_II_beta=WD(100=82.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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