MmuINT1020332 @ mm10
Intron Retention
Gene
ENSMUSG00000060550 | H2-Q7
Description
histocompatibility 2, Q region locus 7 [Source:MGI Symbol;Acc:MGI:95936]
Coordinates
chr17:35442967-35443643:+
Coord C1 exon
chr17:35442967-35442999
Coord A exon
chr17:35443000-35443348
Coord C2 exon
chr17:35443349-35443643
Length
349 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAGT
5' ss Score
8.02
3' ss Seq
TCTTGTCCCTCATTCTCTAGCAT
3' ss Score
9.06
Exon sequences
Seq C1 exon
GTGGACAAGGAGGGGACTGTGCTCCAGCTCCAG
Seq A exon
GTTAGTGTGGGGACAGGATTGTCTGTGGACATTGCAGTGAAGCTGGAGATGTTGGGGAGCTCTGAGAATCCATAGTAACTCTTCCAGAGAAATCTTCCAGGGCCTCAGTTGTACCAATATGAATACATATATGTACATATGCATATACATTTTTTACCCTTGGCAGGGACAGCTCCTAGAGCTCTGATAGATCTCTCCCAGATGGTAAAGGTGACACTCTGGGGCCTGATTGGAGAGGGGCAATGTGGATATGATTGGGTTTCAGGGACTCCACGAATCCCCTCTGAGTGAGTGGTGGGTTGTTGGAATGTTGTCTTCACAGTGATGGGTCTTGTCCCTCATTCTCTAG
Seq C2 exon
CATGAAGACAGCTGCCTGGACTGCACTGAGTGACAGACGATGTGTTCATGTCTCTCCTGTGACATCCAGAGCCCTCAGTTCTCTTTAGACAACAGTGTCTCATGTTCCCTGTGAGCCTATGGACTCAATGTGAGGAACTGTGGAGCCCAGCCTGCCCTGCACACCTGGACCCTGTCCCTGCACTGCCCTGTTCCCTTCCACAGCCAACCTTCCTGTTCCAGCCAAACACTGGGTACATCTACATCCTGTCAGCTCCATGCTGCCCCGAGCTCCAGCTCCATACTTTCACACGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000060550:ENSMUST00000071951:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF066236=MHC_I_C=FE(78.6=100)
A:
NA
C2:
PF066236=MHC_I_C=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion 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:
GTGGACAAGGAGGGGACTGT
R:
TCGTGTGAAAGTATGGAGCTGG
Band lengths:
326-675
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