MmuINT1020330 @ mm10
Intron Retention
Gene
ENSMUSG00000060550 | H2-Q7
Description
histocompatibility 2, Q region locus 7 [Source:MGI Symbol;Acc:MGI:95936]
Coordinates
chr17:35442267-35442794:+
Coord C1 exon
chr17:35442267-35442551
Coord A exon
chr17:35442552-35442677
Coord C2 exon
chr17:35442678-35442794
Length
126 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGG
5' ss Score
8.05
3' ss Seq
ACCTGTACCTGTCCTCCCAGAGC
3' ss Score
8.68
Exon sequences
Seq C1 exon
ATCCCCCAAAGGCACATGTGACCCATCACCCCAGGTCTTATGGTGCTGTCACCCTGAGGTGCTGGGCCCTGGGCTTCTACCCTGCTGACATCACCCTGACTTGGCAGTTGAATGGGGAGGAGCTGACCCAGGACATGGAGCTTGTGGAGACCAGGCCTGCAGGGGATGGAACCTTCCAGAAGTGGGCATCTGTGGTGGTGCCTCTTGGGAAGGAGCAGAATTACACATGCCATGTGAACCATGAGGGGCTGCCTGAGCCCCTTACCCTGAGATGGGGGAGATGGG
Seq A exon
GTAAGGAGGGTGTGGGTGCAGAGCTGTGGTCAGGGAAAGCTGGAGCATTCCGCAGACTCTGAGCTGGTCAGGGCTGAGATCTGGGATCATGACCCTCACCTTCATTACCTGTACCTGTCCTCCCAG
Seq C2 exon
AGCCTCCTCCATACACTGTCTCCAACATGGCGACCATTGCTGTTGTGGTTGACCTTGGAGCTGTGGCCATCATTGGAGCTGTGGTGGCTTTTGTGATGAATAGGAGGTGAAACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000060550:ENSMUST00000071951:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.131 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0765410=C1-set=WD(100=86.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACATCACCCTGACTTGGCAG
R:
TCCAAGGTCAACCACAACAGC
Band lengths:
258-384
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types