MmuINT1020328 @ mm10
Intron Retention
Gene
ENSMUSG00000079507 | H2-Q1
Description
histocompatibility 2, Q region locus 1 [Source:MGI Symbol;Acc:MGI:95928]
Coordinates
chr17:35323780-35324048:+
Coord C1 exon
chr17:35323780-35323812
Coord A exon
chr17:35323813-35324000
Coord C2 exon
chr17:35324001-35324048
Length
188 bp
Sequences
Splice sites
5' ss Seq
CAAGTTAGT
5' ss Score
4.22
3' ss Seq
TTTGTTTTATTTTACCCTAGGCA
3' ss Score
9.54
Exon sequences
Seq C1 exon
GTGGACAAGGAGAGGACTGTGCTCTGGCTCCAA
Seq A exon
GTTAGTGTGTGGGGCAGGATTGTCCTGAGGCCATTAGAGTGAAGCTGGAGATGTTAGGAGCTCTGGGAATCCATAATAGCTCCTCCAGAGAAATCTTCTCCAGAAAAATCTTCTGGCAGCCTGAGTTGTACTGCGATATTAATACATACATATACATGTGCATATACATTTGTTTTATTTTACCCTAG
Seq C2 exon
GCAGGGACAGCGCCCAGAGCTCTGATATCTCTCTCCTAGATTGTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079507:ENSMUST00000073208:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.583 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF066236=MHC_I_C=FE(37.9=100)
A:
NA
C2:
PF066236=MHC_I_C=PD(51.7=88.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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