MmuINT0075645 @ mm9
Intron Retention
Gene
ENSMUSG00000060550 | H2-Q7
Description
histocompatibility 2, Q region locus 7 [Source:MGI Symbol;Acc:MGI:95936]
Coordinates
chr17:35576397-35577129:+
Coord C1 exon
chr17:35576397-35576666
Coord A exon
chr17:35576667-35576853
Coord C2 exon
chr17:35576854-35577129
Length
187 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGT
5' ss Score
10.49
3' ss Seq
CTGACCACTGGGTCCCGCAGGCT
3' ss Score
6.59
Exon sequences
Seq C1 exon
GCCAACACTCGCTGCAATATTTCCACACCGCTGTGTCCCGGCCCGGCCTCGGGGAGCCCTGGTTCATCTCTGTCGGCTACGTGGACGACACGCAGTTCGTGCGCTTCGACAGCGATGCGGAAAATCCGAGGATGGAGCCGCGGGCGCGGTGGATGGAGCAGGAGGGGCCGGAGTATTGGGAGCGGGAGACACAGATCGCCAAGGGCCATGAGCAGAGTTTCCGAGGGAGCCTGAGGACCGCACAGAGCTACTACAACCAGAGCAAGGGCG
Seq A exon
GTGAGTGACCCCGGGTCGGAGGTCACGACCCCTCCACGTCCCGAAACAGAGGCCGGTGAGGTCCCGGGTCCAAAGTCCGAGTTTCAGGAGCAGAACTGACCCAGGACCGGATTCCCTTTCAGTTTGGAGGAGTCCGCGGTGGGGGGGAGGGGGGGGCGGAGGAGGGACTGACCACTGGGTCCCGCAG
Seq C2 exon
GCTCTCACACACTCCAGTGGATGTATGGCTGTGACATGGGGTCCGACGGGCGCCTCCTCCGCGGGTACCTGCAGTTCGCCTATGAAGGCCGCGATTACATCGCCCTGAACGAAGACCTGAAAACGTGGACGGCGGTGGACATGGCGGCACAGATCACCCGACGCAAGTGGGAGCAGGCTGGTATTGCAGAGAAAGACCAGGCCTACCTGGAGGGCACGTGCATGCAGTCGCTCCGCAGATACCTGCAGCTCGGGAAGGAGACGCTGCTGCGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000060550-H2-Q7:NM_001198560:2
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.154 A=NA C2=0.011
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(50.3=98.9)
A:
NA
C2:
PF0012913=MHC_I=PD(49.2=94.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGAGCAGAGTTTCCGAGGGA
R:
CTCTGCAATACCAGCCTGCTC
Band lengths:
254-441
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: