MmuINT0075644 @ mm9
Intron Retention
Gene
ENSMUSG00000060550 | H2-Q7
Description
histocompatibility 2, Q region locus 7 [Source:MGI Symbol;Acc:MGI:95936]
Coordinates
chr17:35576100-35576666:+
Coord C1 exon
chr17:35576100-35576229
Coord A exon
chr17:35576230-35576396
Coord C2 exon
chr17:35576397-35576666
Length
167 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
TCACCGCGCGCCGCCCCCAGGCC
3' ss Score
9.01
Exon sequences
Seq C1 exon
CGGGAGCGGGTTGTAAAGTCCACGCTGCCCACAGGAGTCAGTCGACCGGAATCCCCCAGGGGAGCAATGGCTCTAACAATGCTGCTCTTGCTGGTGGCGGCCGCCCTGACCCTGATCGAGACCCGCGCGG
Seq A exon
GTGAGTGCGGGGTCGGGAGGGAAACAGCCCCTGTGCCGCGTCCCCGCGTCGCCCACCGGACCTCCGCCCCTTCTCCACCCGAGCCCCGAGCCCTGCTCCACTCCCGGCCCGCGTACCCGACCGGGGTCCGGGGAGGAGGTCGGGGTCTCACCGCGCGCCGCCCCCAG
Seq C2 exon
GCCAACACTCGCTGCAATATTTCCACACCGCTGTGTCCCGGCCCGGCCTCGGGGAGCCCTGGTTCATCTCTGTCGGCTACGTGGACGACACGCAGTTCGTGCGCTTCGACAGCGATGCGGAAAATCCGAGGATGGAGCCGCGGGCGCGGTGGATGGAGCAGGAGGGGCCGGAGTATTGGGAGCGGGAGACACAGATCGCCAAGGGCCATGAGCAGAGTTTCCGAGGGAGCCTGAGGACCGCACAGAGCTACTACAACCAGAGCAAGGGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000060550-H2-Q7:NM_001198560:1
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=0.154
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
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:
AACAATGCTGCTCTTGCTGGT
R:
TGTCTCCCGCTCCCAATACTC
Band lengths:
247-414
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: