MmuINT0075513 @ mm9
Intron Retention
Gene
ENSMUSG00000079547 | H2-DMb1
Description
histocompatibility 2, class II, locus Mb1 [Source:MGI Symbol;Acc:MGI:95922]
Coordinates
chr17:34292378-34294475:+
Coord C1 exon
chr17:34292378-34292659
Coord A exon
chr17:34292660-34294190
Coord C2 exon
chr17:34294191-34294475
Length
1531 bp
Sequences
Splice sites
5' ss Seq
CGAGTGAGC
5' ss Score
5.16
3' ss Seq
TAACTGCTTCTCCCATGCAGGAG
3' ss Score
8.94
Exon sequences
Seq C1 exon
GTGGCTTTGTGGCTCATGTGGAAAGCACGTGCGTGCTGGATGATGCTGGGACCCCACAGGACTTCACATACTGTGTTTCCTTCAACAAAGATCTGCTGGCCTGCTGGGATCCAGATGTGGGAAAAATAGTCCCCTGTGAATTTGGGGTGCTGTATCCATGGGCCGAAAATTTTTCAAGGATCCTCAACAAAGAAGAGAGCCTTCTCCAGCGTTTGCAAAACGGGCTTCTGGACTGTGCCTCCCACACCCAGCCCTTCTGGAATGCGCTGACCCACAGAACGA
Seq A exon
GTGAGCAGAGGGGCAGTCTGGGAGCACAGCCAGGAGGGCAGTGGACAAGGAGATGCTTGAGCAACAAAGGGGTTAATACCTGGGCAGGAAGAGACAGTGTGGACTTGCAAGAGGCAGCAGGACATGGAGGGAGCAGTGTGGTAATGGGGACAGACTGGAGGAAGAGGATGTAGTGAGAAGGAATTGACTAGGACCAGAAGCAGAAGCCAAGCATGTCAGGGTAGAGATCCTAGCCAGAAGTCCACCAATGACTTTCCCCATTCCTGGCTGTTCTTTTTATTTATTTTAATTAGATATTTCTTCCCATTACTGGGGACTGAACCCAGGACCCTGCACATGCCTGGCAAGCACTTTACCAGTGTGTATGTCCTAGGTCCATTTCTACTATGTGTTCTGAGGCAGGATTTCCCAAAGTTGCCAAAGCTGGCCTTGAACTTGTAACTCTTGTTTCAGTGTTGCAGCCAGCTGGAATTGCAGGCTTGGGTCTCCAAGCCTGTTGCTGTTTTATTAGCTCAGATTTTGTTGTTCCATATTTAGAAGGGATGCAGGGTGTGGGGAGATCTGCAGTGCTCCAGGGACTCCAGTAAAGTTTCTCTTCCTCTGGACACCTTTGCATAGAGAATCGCTCATGGAACTGCTTAAAGCTGGTAACGTTGTATAAACTTTGAAGATCTCCATAGGTCAGAGTGTCAGGTGTGTCATAAGATACAGTTTCTCAGCCACCTTTCAGCATCACCTGCTCAAGGTGCTTACTGAAGATGCAAGTTCCTGGGTACCACTCTAGACAGGGAGAAAATACCTTTAGTGAAGCCTAGAGAGACTGTATTTTTTTTTAAAAAAGATTTATTTATTTACATATGTAATGCATATGAGTACACTGCCACTTTCTCCAGATACAGCAGAAGAGGGCATCAGATCCCGTTATAGATGGTTATGAGCCACTATGTGGTCGCTGGGAATTGAACTCAGGACCTCTGGAAGAGCAGTCGGTGCTCTTAACCACTGAGCCATCTCTCCAGCCCAAGAGTCTGTATTTTAACATAATTTCTTGCATTTTCTCTTAAAATCTTACACTGATAGAGGAGAGCAGGAGGATCTCTTGCGGGGGTGGGGGCGGGGCGGGGCGGGATAAGCTAGCAGAAAATGGAGTCTTAGTAATCTCATCTTCAGGCATGGTGGTACAGACCTGTAATGCCAGCACTTGGGAAGAGGTAGGAGACTAGGAGTTAGGACCATCACCAGCCTCAGAGGAGTGTGGGCTATATGAGAGCACATCTTAGAAAACACACAAGCATGGGGCCATGCAGGATAAGCACAGATACTATGCAGACAGTTCAAGGCTCAGATGGGGCATTTCCCAATTGTGATAAAAAATGACTTTGGAGAAGAAAAGAAAGAGGTTATGAGATATTAAGAGGAAGCCTGAGAGGCAGGAGTGAGTTCTGTTTCCCTTTTCAATGTGTGGCTGCAGACAGTTTTGAAAGGATGAAATGAGACTTCCTTACCAACCATAACTGCTTCTCCCATGCAG
Seq C2 exon
GAGCGCCATCTGTCCGAGTAGCCCAAACCACACCTTTTAACACAAGGGAGCCGGTGATGCTGGCCTGCTACGTCTGGGGCTTCTATCCAGCGGATGTGACCATCACATGGATGAAGAATGGGCAGCTTGTCCCTTCCCACAGCAACAAGGAGAAGACGGCTCAGCCCAATGGAGACTGGACATACCAGACAGTCTCCTACCTAGCCCTAACCCCTTCCTACGGGGACGTCTACACCTGCGTGGTTCAGCACAGCGGGACCTCTGAGCCCATCCGAGGGGACTGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079547-H2-DMb1:NM_010387:2
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.146
Domain overlap (PFAM):
C1:
PF0096914=MHC_II_beta=WD(100=84.2)
A:
NA
C2:
PF0765410=C1-set=WD(100=87.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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:
GCTGTATCCATGGGCCGAAAA
R:
AGGGGTTAGGGCTAGGTAGGA
Band lengths:
349-1880
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: