MmuINT0075639 @ mm10
Intron Retention
Gene
ENSMUSG00000091705 | H2-Q2
Description
histocompatibility 2, Q region locus 2 [Source:MGI Symbol;Acc:MGI:95931]
Coordinates
chr17:35345454-35345794:+
Coord C1 exon
chr17:35345454-35345486
Coord A exon
chr17:35345487-35345659
Coord C2 exon
chr17:35345660-35345794
Length
173 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAGT
5' ss Score
8.02
3' ss Seq
TTTGTTTTGTTTTACCCTAGGCA
3' ss Score
10.28
Exon sequences
Seq C1 exon
GTGGAAAAGTAAGAGACTACGCTCAAGATCCAG
Seq A exon
GTTAGTGTGGGGGACAGGATTGTCCTGAGGCCATTAGAGTGAAGCTGGAGATGTTAGGAGCTCTGGGAATCCATAATAACTCCTCCAGAGAAATCTTCTGGGAGCCTGAGTTGTACTGTGATATGAATACATACATTTTCATGTACATATACATTTGTTTTGTTTTACCCTAG
Seq C2 exon
GCAGGGACAGCCCCCAGAGCTCTGATATCTCTCTCCTAGAATTGTAAAGGTGACACTCTGGTGCCTGATTGGGGAGGGGCAATGTGGACATGATTGGGTTTCAGGGACTCCCAGAATCCCCTGTGAGTGGTGGGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000091705:ENSMUST00000074806:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.792 A=NA C2=0.410
Domain overlap (PFAM):
C1:
PF066236=MHC_I_C=FE(40.7=100)
A:
NA
C2:
PF066236=MHC_I_C=PD(48.1=81.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
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:
GTGGAAAAGTAAGAGACTACGCTCA
R:
CACTCACAGGGGATTCTGGGA
Band lengths:
162-335
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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