MmuINT0075566 @ mm9
Intron Retention
Gene
ENSMUSG00000023083 | H2-M10.2
Description
histocompatibility 2, M region locus 10.2 [Source:MGI Symbol;Acc:MGI:1276525]
Coordinates
chr17:36422791-36423366:-
Coord C1 exon
chr17:36423300-36423366
Coord A exon
chr17:36423061-36423299
Coord C2 exon
chr17:36422791-36423060
Length
239 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
TCAATGTGCCCCACCCACAGGCT
3' ss Score
8.38
Exon sequences
Seq C1 exon
ATGAACCCTGGACCCTGCAACTTCCTCCTCCTCTTGGTGGCCTTGGACCTGACCCAGTATTGTGCAG
Seq A exon
GTGGGTGCCGGGCATGGAGGGAACTGGACTTTGGGGGAGCAGAACACAGCACTTGAAATCCTCATCTCTGCACTTTCTCCCTTGCATAACCAGACCCTCCCTGATCCCCGAGCTGGATCACCCTGACCCTCTCCTGCATCTCAGGTCCACAGACACACACCACCACCCCGCTCTGCTCCCTACCAACCTGCTCTGGGTCTAAGCTGAAGAGGCAGGGTCTCAATGTGCCCCACCCACAG
Seq C2 exon
GCTCACACTGGCTGCAGACTTTCAATACTGTGATTTTGAAGCATGGCACGTTGGAGCCCCGGATCATCCAGGTCGGCTATGTAGACTCCATACAGTATCAGGGATTTGACAGCAAAGAACCGACTGCAAGGATGCAACCTCGGGCTGCATGGATGGAGCAGGAGCCACCTGAATATTGGGAGAAGGAGACAGCACAAGTCCTGCGCTTGTCACTGACAAACGAAAGACTTCTTAGGTACATGATGATCTACAATGAACAGAGCAATGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000023083-H2-M10.2:NM_177923:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.033
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(0.1=0.0)
A:
NA
C2:
PF0012913=MHC_I=PU(50.3=98.9)
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
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGAACCCTGGACCCTGCAA
R:
AGTCTTTCGTTTGTCAGTGACA
Band lengths:
296-535
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: