MmuINT0075526 @ mm10
Intron Retention
Gene
ENSMUSG00000060586 | H2-Eb1
Description
histocompatibility 2, class II antigen E beta [Source:MGI Symbol;Acc:MGI:95901]
Coordinates
chr17:34309591-34314451:+
Coord C1 exon
chr17:34309591-34309860
Coord A exon
chr17:34309861-34314169
Coord C2 exon
chr17:34314170-34314451
Length
4309 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
TCTCACCTATCTTTCTCTAGTTG
3' ss Score
10
Exon sequences
Seq C1 exon
CATGGTTTTTGGAATACTGTAAATCTGAGTGTCATTTCTACAACGGGACGCAGCGCGTGCGGCTTCTGGAAAGATACTTCTACAACCTGGAGGAGAACCTGCGCTTCGACAGCGACGTGGGCGAGTTCCGCGCGGTGACCGAGCTGGGGCGGCCAGACGCCGAGAACTGGAACAGCCAGCCGGAGTTCCTGGAGCAAAAGCGGGCCGAGGTGGACACGGTGTGCAGACACAACTATGAGATCTCGGATAAATTCCTTGTGCGGCGGAGAG
Seq A exon
GTGAGACAGGACAGGGTGGCTGGGGCGGAACCACGGTGAGGGTGGGGCTGTGGGGAGCAGCAGAAGGCGGTGCGCATGTGCGCAGGAGCCGCAGGGAATGCTGGGTTCCCTGCAGCTGGAGCCACAGGCGCTTTTAAGCAGCCTCTTGGCAGGGGAACGGAATTCATCCTTGGTACCATTAACTGCTGATCTCCTCACTGGCCCGAGCAAAAAGTCAGGACTGCCCAGGACAGCGACCCATGAGTGAAAACTGCATTAAACATACTTTCACCTTAAGCAGGAGGGCTAGGAGAGGGGTGGGCAGAGGAAAGTAAAGCTGGACCCCGGAGTGGGGTCGTCCCCAAAGGGAGAGTAGCACTGATGGAGACCTACCTACACGGTGTGCGGAAGGCCTCAGCCAAGTACAGTTTTGAATCTCAGGTTGTGAACGACCCACAACGTGAGGACTCCCCCACGTTCTGACTCAGGAGAGGCGACACCCCAAATCACACAAGAAACGGTCTTGCTGCAAAGTGCAAGAGGACTTTTATTTAAGAGCGCTCTTGGGCCCATGGTCATACACCACGCAGGGGTAGAGGACTGTGGCACCCCGAGTAGCTGGGTAAGGGGGTATTTAAAGGAAGAAACCACAACTCAAGGAAGTGGGGAGGGCTTTGTTGGAAAATACAAAAGATACCAGTTAAGAGTCCCAAGGAAGTGCAAAGTCACAAGAGTCACAAGGAATACCTGGTAATTGTTCAGGTTATCTCTCAAGACAGTTTCTAAGAGCCCCTAACAATAGCACATTTGCATAGCGGGTTCTGGCAATGGTCAGGGTGACTTTCTTTGAATGAACACTCTTTGAACTCAGGAAGTGGGTGGGTGGAGAAATGTCGCTATCTGTTTTATGATTAGCATTCCTTGGAGCATTAAGTCACAGAGGTCACATTCTCAAGCCTGGGCCTAAAGGCCCAGAATTTTGTTTTTGCGTTTTACTTTTTCATTCCCCACTTCTACTTGTTAGTAGTTCTAATCTTAGAACTAGACACTATCTTTTTCCTGACATACTTGATCCTTTAGGGCATGGTACTGTTGTCTTAAAGCTAAAAGCCGCACTGCACTAATTTTTGTTTTAATAAAGGTGAGTTGTCTATTTAATATACATGGACCTATAATTAAAAGCAGAAGTAAAATCAAAAGGGGTCTTATAAAGGTAGAAAGTAGGGTGGTCAAGAGTACAAGATAAGGGTCTTTCTACCCAAGTCTCAAGGTTTTCTGCGTGGAGACGTCTAATGTAGAACGAATCTCTAACTTGGAAGAGATGTGGTGCTTCTAGGTCTTCTGGAGCAGGCCTTCTGGAGCTGCTTCTTTGCTTGCTGTCTCACCCACTCAAGCGCCTTGAGCCTAGAGAACAAAGGCTGGGAAAGCAGCATGTCAGCACTATGTGCAGAGGCTATTTTTAACCAGTGGAGGGGGCCCCCTGTAGAGTAATTTATAGGGGGGTTAGTCTAAACTGTCCAGGGGTGTTTCTAACCCTGAAGAGCACAAAGGGTAGGTGAGCTATCTAATTATTAGCGCCAGTCTCCACTGTCAATTTGGTAAGGGTCTCTTAATGGTTCTATTCATTTTCTCTACCTGTCCTGAGCTTTGGGGCCTGCATGCACAATGTAACTTCTAATCAATCCCCAATATCTTGGCCAGTCCCTGATTTACCTGGGCAACAAAGACAGGTCCGTTATTGGACCCAATTACCTTGGGAAGATTTCTTTTAGAAATTTTACCTCGTCATAGCACAGGCCTTGCAGCTTTTGACTATTTTTTCTGCCAAGTCAGAGAGTCCTATAACATAGTAGTAGGAGGACCTAACCACACCTTTTAATTTCTTGGCCCCCAGGTGGGTCAAATAATGTCCATAACTTGATAGTGCTCAGGGGTGTATCTAAAGCTGGTCTCCCTGATGTCATAATAATCTTTAGGCTTCTTGACTGCCAGGATCATTGCTCCTTGGGCTGACTGTTTGGCGGTTAGATCTGCCATCTGATTTTCTTTAGCCACAGCATCTTAGGTCTTTCTCTGCAGATGGCAATGAAGCCATGACTTTCCCTTAACACAGATGACACAGTCAGTCATGTGACTGCCCTTTACCAAGATGGCTACAAAGCCTTGATTTTTCCCCCACAACAATGATGGCGAGCACTCTTGTCTTTGTGCTTTCCTTGTGTTTTTTTTACTGTCCTCCTAGGACATAAAAGGCTTGGTAGCAGGTGGCATAGTCATGTTTGGCTTGCACCTCAAGGTCACATCCTGTCTCTACTGTGTCTAGGTTTGCTCCGGTATATGGTGCTGTTGTTGGCAGATAGCTATGGGCAGGGGAAGTGGATATGCCCAGCAATTTATTCTTTTACACTGTAGTGCTCTGCAGCTGTCCTCCCGGGATGTAGACATGCTGCCACACAGGGGCTAGGACAGGCACACTGAAGCCAATGGCAGTTTCCACACTGTGCCTGCCACTCAGTGCTGCCAACACTGCATAAGGACAGGGAGGTCTCATGAGGGTGTCAGGGGCTGGGTGGTGCCTAGATCCACATGTGTGCAGTCACTGAAGCTGGGACAGAGGTGTTGCTGTAGATGAAGCCAGAGCTCAGTTCCCCAAAACCTGGATTTAGGGAAGTTCAGACTGAAGCCTGTATGTCTGCAGTTTTTAAAAAATCTGGCATTTTGAATGGAGGCAATGTCCAAGACCAACCTAATTTAGATAAATGTTGCTGCCACATCCTTTGGGTGTCTGGCTATTGAGGATTTAGACATTGTATGTATTATTTGAGCCTTTCTGGGACCCGGGGGTGGGCTGCCTTCTGCCTGCTAGCCTGGGTAGTACTGTGGTTCATGGTGGGGTAGGCTCAAGTCAACGGTGTTTGAACTCTTTCCTGATGAGAAGAAAAGACCAGGCCTTTGTTTGGGTCCTTGAGTGGCCAAGGCTCTTGGCAGAGTGCCTGAGAAGTGTGTCGGGCCCTGGAGGAGGTAGAGGCTGGGACCGAAGTGGATTTCCTAAGTCTGAAAGTCAGGGTTGAGATGTTGTAGGTCCACAGCCGAATTGCAGTTAATCTTGGGCTTGCTTAGCTTACACTTCTTTATGCTTCTCATAAGTAAAGGAAGTCAGGACAGAAACTCCAGCAGGGCAGGAACTTGGAAACAGGAGCTGATGCAGAGGCCATGGAGAGTGGGTTGCTCCTCAGAGCCTGCTCAGCCTGCTCTCTTATAGAGCCCAGGACAACCATCAAGGGACAGCACCTCCCACAGTGGGTGAGTCCCTCCCCCCCCCATCAATCACTAATTAAGAATATGCCCTAAAGGCTTACCTACAGCCCAATCTTGTGGGGCATTTTCTAAATTGAGGTTCCCTCCTCTCAAGTGACTTTAGCTGTGTCAGATCAACATAAAACTACCCAGGACAGTTTGTGATGTTGAAACCCCCAACCCTGATTGCATGACTCAAGGTGTGGGACCACAACCCCATCTGCACAGCTCAAGATGGTACGACAGCTTCTTCACTCAGCTTCAGAAGATTGTAAAGAGATCAACCGGAAATAACCAAAGAAAATGAAGGCTTCTATAAACTAATTTTAATGGGATTCCCCATCCCTTATTTACAATAATGGGTCATGTGAATGGCTGTTATGACTTGTTGCCTAGAAAAAAAGCACACACAAAATGAAAATGGCCTGGCTTCTTCAGCTGGGAGAGGATCCTCGCTCAGCACTGCCATCTGCTGTTTGTCCACTGCTCTGCATGGTCAGGGTGCAGACTGCAGCTCAGCCCACAATCCCTGCAGCTCACAGTCTGGCCCCTGCTGATGTGACTGTGAATCCCTGTTTAGCCGACATGAAGAAGTAATGATGTCAGATATGGCAAAGTTGATTTAGAGTTTTGCCAAAACAGATGAGAAAGGAGTAACACTCAGTAAGTCTTCCTGCCTCACCCAAAGAACTTTCACCATCTACAGACAAGAAGAAACAGAACCCATGTGCTATACACACAGGGTATGTGGGTGTCGCTTAGCTGTTGGTTAAAGTATCACAGCTGAGAGGAGAGCCTGTTTCTCTCCGCCTGGAGCTTCACCTCCAGCTGGTGATTCCTCCTGAGAGTGGAGCTGACAGTAAATTGTGAAAACAGAACCTGAGTCCTGGGCGACTGTAGAACCTTAGCCTGCCTGGATCCAGTCTGGATGGATAGATGGAGGTAGGCAGGCAGGCAGGCAGGCAGGCATGCAGGCAGCCTACAAGGAGGACAGCTCCACCCTCATGGCTCCTTCTCACCTATCTTTCTCTAG
Seq C2 exon
TTGAGCCTACGGTGACTGTGTACCCCACAAAGACACAGCCCCTGGAACACCACAACCTCCTGGTCTGCTCTGTGAGTGACTTCTACCCTGGCAACATTGAAGTCAGATGGTTCCGGAATGGCAAGGAGGAGAAAACAGGAATTGTGTCCACGGGCCTGGTCCGAAATGGAGACTGGACCTTCCAGACACTGGTGATGCTGGAGACGGTTCCTCAGAGTGGAGAGGTTTACACCTGCCAGGTGGAGCATCCCAGCCTGACCGACCCTGTCACGGTCGAGTGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000060586:ENSMUST00000074557:2
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=0.021
Domain overlap (PFAM):
C1:
PF0096914=MHC_II_beta=WD(100=82.4)
A:
NA
C2:
PF0765410=C1-set=WD(100=87.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
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