MmuINT0075525 @ mm9
Intron Retention
Gene
ENSMUSG00000060586 | H2-Eb1
Description
histocompatibility 2, class II antigen E beta [Source:MGI Symbol;Acc:MGI:95901]
Coordinates
chr17:34442812-34446805:+
Coord C1 exon
chr17:34442812-34442992
Coord A exon
chr17:34442993-34446535
Coord C2 exon
chr17:34446536-34446805
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
TTATTATCTTAGCAATGAGTAAAGAGAATAAAGTTACAGTCTGAAGCTTGCCTTCCCCTCTGACTCCTGTGTCTCCTCTCCTGCAGCATGGTGTGGCTCCCCAGAGTTCCCTGTGTGGCAGCTGTGATCCTGTTGCTGACAGTGCTGAGCCCTCCAGTGGCTTTGGTCAGAGACTCCAGAC
Seq A exon
GTAAGTGCACACCTCAGGTGCTGGGATGCTCGGGGTCGGGGAAGGAAGGAGCTAACATTCTCACTGTCCAGGCCAAGTCCCTCGGAACTATTGATATCTTCTGTGAGCATGCACAGTCCTCACATGAACTCTAAACTATGTCCCCAAACAGAAGCCTGGATGTTTGTGCTCTCAGATCTGTGTGAGAGGCCGCTGGGTATCAGCCATTGCTTTTCAAGTTTCTCCCAGTAACATCTACACCTGCGTCATATTCCTTTAGGGCCCTGAGAAGATCGATGAATCATGATGTTAAATTAACTTCTGGGACAGGCCCTGTCTTCACTGTGTTGAGATAAAGCCAGACAAAGTGGTTTCTCTTTAAAAATAGAACTTCCTATGTGTGTTTCTATTCTACTTTTTATGTATGTTTTCTGTTGTTTTGGGCCAAACAGTAAAATATTGATATCTAATCAGAAGATTTCTGTGGAGGTGTCATAGAGTCAAGGGGCAGTGAGGTCATCACAGGGAGATTCCTGTGCACCCTCTGCAGGCTGTGAGGCCACTGCCACACATTGCTACCTGTGAGGCGTAACCCAGGGCTTCCTTTTTCTCTCTCACTGACTCCAGTGCTTGTGTAGCCTGTTCCCATGCAGAACCTCTGCTGGGTGGTGGTTAGTGTTTCCCCTTGTCCTGGGCGCACACAGCAGCTAATGCTGAGGGTCTTAGATCTGGAAATGGGCATCTGTGGGTTATTCTAAAGAACTGGAAGTCCCTTCTGAGACCCCGGGGCAGGTTAGACTGGTTCAGTGTTCATGTTCTGAACATGTCTGCATATTGTTTTTCTTTAACATTCTCTGCCCTGAGCCCATGAAAAGGACCTGACTTCTCTTTGCATTGTATGATCCCTTCCTAGCTTCATGACCCACATATACATCACACACAGAAAAATCAAAGTCTGTGCTATGCACATGGGAGATAAAAGATGGGGTTATCAACACTGCTGAAACTGTGACCCTGGGCTGGAGAGATGGCTCAGTGGTTAAGGTCACTGGCTGTGCTTTCAGAGAGCCTGGGCTCAATTCCCAGCACTCACAGGGCAGCTCACCACTGTCTGAACTCCAGGAGTTCCAACATCTTCACACAGACACACATGCACACAAAATGCCAATGCACATAAAATGAAAATAAATAATTTAAAAAATAATCTGAGACCCCAGAATGCTGGGACTGTGGGCAAGCCCTCTGACCCCTTTTGGCTTTGGCTGCAATGTAAAATGTGGAAGAGATGATCTTTTTCATAGAGCTCTCTGAGGATTGGGAGAAATGGCCATGTAAAGCATTAGGGTCCTGCTGCCACACTGTGTGCTTCCTCTCTGTAAGCTGTTCTCAAAGGGCACATGGAAGCTTCCAGATTGCCTCTCATCTCATTGCCACCTCCCACAGACCAGAATCCTGCCCTTGCATCATTTGTCACAGGGACCATTCTTATGACTTCCAGAACTGTCCTTTTTTATTTTTTTTTCCATTTTGTCTTTTCTCCTCACTATTGTCTGTGTTGTCTCAAACACAGGGACAAGTGATTCCATCACTGAAATCTCTGTTAAATTCATGAGCCACAGTGATGACTGCTGCAAATACTTCTCAGGAAACACACCAAACTTCATCCTACTGAGCGTGAGGTTGATAATGGCTGGTGCTCGCCTTTATTTCAGTTGCTTTTCACAAATCTCTTGTACATTTCTGAGTTAGATTAAGTGTGAAGATGAAAAGACGTCCATCTAATGTGTCGTCCTCTATTGAGACTAGAGGAACTCACATGACTGACTGACCCACCAGATCCTGGAGACACGCCCTTACCTTACCTGGGGTCACATTTGGCATCTGATTTTAAAACGGTCTGGTTTTTGAATTCTCTGCATCTGTAATTCAGATAACAGATTGTAGCTCAGTATTGGGATCACGGTCTCAATTTCCAGAAACTTCTCCAGTTGTTTTCTCTCAGTGAAAAACAGACAGCTTCCATCAACTCCAAGGCTTTTGAGCTGGGGCTGCTTTTGATCCCCCAAGTCTCATCTCTCATTGTTGCCCCAATGTCCTGTGCTCTGTTATTCATGAACTCAGTGCTGGCATGAGGTGTTTGTTACCTCACCTAAGAGTTGCTCCTCTACTCCCTGTATCCCCTCTTCTGACATTTGCAGCCACCACCCTCTTCTGGCTCACATCTGTGACAGAACTTCACTTTCTGTCCCCAGGATGCTTCCCTTCCCCTCCTGTCACTCAAGACTTCCTGTTAATGGAACTCCATCCCCTCCCCGCTTCTTCCCCACCTTCACAGTTTAAAGCTCTGGCATGGAGGGAGGCCTCCGTTTCTCCTCTTAGGGTTTCCATGGGCAGCGCAGGCCTGCACAGGGCGGGCACTGAGGAAGATTTACTGTGTTCTGTGTGGTGTGTTAAGGAGCTTGAGCCTGAAGGGTGGGAGGGAGGTGTCTTCTGAGCTGGTGAGTCCTGGTCTCCAGCTTAGCTCCAGGTGGGGCAGGATCAGGAAGGGGTATACCCAATGGCTCCCTGTGTTGCTGGAATACATATATATGTTTGTGTGTGTGTGTGTATATATATATACATATACATATATATATATATATATATACACACACACATATGTGTATGTATGTATGTATGTATGTATGTATGTATGTATGTATGTAACAACAATTAAGGACAAAAGAGGCCATGAATTTGAAAGAGAACATGGAGTTGTACATAGGAAGGTTCAGGGGGAGGAAAAGGAACAGGGGAAATGGTTGAATTATATGACAATCTCAAAAATAAGAGTCTTACTGGGTTTGAACCACACTTATAGGCAGGCCCCTAGCCCAGCAGTAGATGTTCCAATAGAAAGAAAATCCAGTGGTTTTCTTGCAGAATTTAAAAAAAATTATTTATTTATTTGCCTTACAGAGTTTTTGCTTATATATTAGGGTTTCAGATTTTGTCTGTTTTATTATTCCTTTTTGTTTGTATGTGTGTGTCTGTGTTTCTTATAGTTTTTTAAATCACTTTTTGTTTATTTCGTCCTGTTTGTTTGTTTGATTTGAGGTGGTCCTAATTGAGTATTTTCTAATGTGTAAGAGAACCAAGTGTGGCTTTAGGTGGTTGGAGAGGAGGCTATGAAGAGAATCTATTGTATGAGAAATTTTTATTTAAAAACCAAAGCAGAAGAATCCACTGGGAGATAAAATGGCCACTCGACCTCTCTGTCGCTTGGGACCTTGAGGTCATGATGAAGGTTAAAGAAATGAGGGGGAGAGGACTGAGGGAGGAGGACTGTCCAGTCCCACTGGGAATAGGGGGCGGGTTCCCCGAGTTCCTCCATCACTTCACTGGGTAGCACAGCTGTAACTGTCCAGCCTGGGGTGGAGCTGGGGCGTGCGTCCTTCTGCCCTGTTAGTTGTGGAGACCTCAGAAGTGAGCAGGGTAGAACTTGGGTCTGGTCGGTCATTCGGGCAGCTGAGAGGGACTCGGGCATCTTGTCGGCAGAGAAGAAGATAATTCTTGTCTCCACAG
Seq C2 exon
CATGGTTTTTGGAATACTGTAAATCTGAGTGTCATTTCTACAACGGGACGCAGCGCGTGCGGCTTCTGGAAAGATACTTCTACAACCTGGAGGAGAACCTGCGCTTCGACAGCGACGTGGGCGAGTTCCGCGCGGTGACCGAGCTGGGGCGGCCAGACGCCGAGAACTGGAACAGCCAGCCGGAGTTCCTGGAGCAAAAGCGGGCCGAGGTGGACACGGTGTGCAGACACAACTATGAGATCTCGGATAAATTCCTTGTGCGGCGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000060586-H2-Eb1:NM_010382:1
Average complexity
IR-C
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=0.004
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0096914=MHC_II_beta=WD(100=82.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: