MmuINT0075568 @ mm9
Intron Retention
Gene
ENSMUSG00000023083 | H2-M10.2
Description
histocompatibility 2, M region locus 10.2 [Source:MGI Symbol;Acc:MGI:1276525]
Coordinates
chr17:36421453-36422559:-
Coord C1 exon
chr17:36422284-36422559
Coord A exon
chr17:36421729-36422283
Coord C2 exon
chr17:36421453-36421728
Length
555 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGA
5' ss Score
7.54
3' ss Seq
TTTCCAATTGTTCCCCTCAGATG
3' ss Score
10.03
Exon sequences
Seq C1 exon
AATATCACACCCTGCAGGAAGTGTTTGGCTGCAATGTGGATAATGATGGGAGCTTCCTCGGCGGTCTCTACCGGCTCACCTACTACGGCTATGAGTTCATCAACCTGAATGAGGACCTGAGTTCCTGGACAGCACAGGGAGAGGCAGCTGGGTTCCTGAAGACAGACTTGGTGAATGTAGGCGCAGCGGAAGGCTGGAGGACCTACCTGCTAGGGGAGTGCACAGAAAGGCTTCTTAGATGCCTGGACCTCGGAAAGGAGACCTTGCTGCGCTCTG
Seq A exon
GTGAGAGGCCCTTGACAACCCCTTCTGCTTTCTGACATTGGAGCTCCTGCCTCCCTGAGGCCTCCTCCTCAGCAGGGAGCAGCTGGAATGCTTACACTGTCTTGCATCAAAGGGGAAAGAGAGCTCCTCGTGTCCTGACTCAACGTGAGAGAGGGACTCTCCAGAGGATTCAGCCTTCTCCCAGGACAGTTCAGTGTGTCCATTAACAGCAGTTCCCTTCCATCTGCACTGTGTATCATGGCCTCTCTCAGGCCGGATCACTGTCCTTGCACAATGACATTTAAAGTCTGACTCCAGGGTTGCTGAGTCCCTAGACCCCCTCCCCAATCAAAAAGAGAAGTCTATTTGTCTAGAATTTCCTGTTCTGTGTTGGCTCATGGTTATTGTAAAATAATCCAAGGAATAGATCATCCAGATCCTGAGTGTAGGCTTCTGTGTGGACTCTGCTCCCTCCCTCATCCAAGTCTCCCATCCTTTCCAGGGATGGTCCCATGAGCACTGCTCAGGCCCCCAGAGGAGTGCAAAATACCTGAATTTTCCAATTGTTCCCCTCAG
Seq C2 exon
ATGCCCCCCGAACACATGTGACCCACCATGTAAGACCTGAAGGGAATGTCACCCTGAGGTGCTGGGCCCTGGGCTTCTACCCAGCTGACATCACCCTGACCTGGAAGAGAGATGGGAAAAACTACACCCAGGACATGGAGCTGCCAGACACCAGGCCTGCAGGGGATGGAACCTTCCAGAAGTGGGCAGCTGTGGTGGTTCCCTCTGGAGAAGAGCTGAGATACACATGTCATGTGCACCATGAAGGGTTACCTGAGCCTCTCACTCTAAAATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000023083-H2-M10.2:NM_177923:3
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=0.161
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PD(49.2=94.6)
A:
NA
C2:
PF0765410=C1-set=WD(100=89.2)
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:
GACCTACCTGCTAGGGGAGTG
R:
GTGAGAGGCTCAGGTAACCCT
Band lengths:
342-897
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: