MmuINT0075641 @ mm9
Intron Retention
Gene
ENSMUSG00000073409 | H2-Q6
Description
histocompatibility 2, Q region locus 6 [Source:MGI Symbol;Acc:MGI:95935]
Coordinates
chr17:35562053-35562791:+
Coord C1 exon
chr17:35562053-35562322
Coord A exon
chr17:35562323-35562515
Coord C2 exon
chr17:35562516-35562791
Length
193 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
GCCCACACTCGCTGCGGTATTTCCACACTGCTGTGTCCTGGCCCGGCCTCGTGGAGCCCCGGTTCATTATCGTCGGCTACGTGGACAACAAGCAGTTCGTGCGCTTCGACAGCGACGCGGAAAATCCGAGGATGGAGCCGCGGGCGCGGTGGATGGAGCAGGAGGGGCCGGAGTATTGGGAGCGGGAGACACAGAAAGCCAAGGGCCATGAGGAGAGTTTCCGAGTGAGCCTGAGGACCGCACAGAGATACTACAACCAGAGCAAGGGCG
Seq A exon
GTGAGTGACCCCGGGTCGGAGGTCACGACCCCTCCACGTCCCGAAACAGAGGCCGGTGAGGTCCCGGGTCCAAAGTCCGAGTTTCAGGAGCAGAACTGACCCAGGACCGGATTCCCTTTCAGTTTGGAGGAGTCCGCGGTGGGGGGTGGGGGGGGGGGTGGGCGGAGGAGGGACTGACCACTGGGTCCCGCAG
Seq C2 exon
GCTCTCACACACTCCAGTGGATGTATGGCTGTGACGTGGGGTCCGACGAGCGCCTCCTCCGCGGGTACCTGCAGTTCGCCTATGAAGGCCGCGATTACATCGCCCTGAACGAAGACCTGAAAACCTGGACGGCGGCGGACATGGCTGCACAGATCACCCTACACAAGTGGGAGCAGGCTGGTATTGCAGAGAGAGACCGGGCCTACCTGGAGGGCGCTTGCGTGCAGTCGCTCCGCAGATACCTGCAGCTCCGGAAGGAGACGCTGCTGTGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000073409-H2-Q6:NM_207648:2
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.174 A=NA C2=0.000
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGACACAGAAAGCCAAGGG
R:
GTGTAGGGTGATCTGTGCAGC
Band lengths:
250-443
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: