MmuINT0074015 @ mm9
Intron Retention
Gene
ENSMUSG00000026959 | Grin1
Description
glutamate receptor, ionotropic, NMDA1 (zeta 1) [Source:MGI Symbol;Acc:MGI:95819]
Coordinates
chr2:25160558-25160926:-
Coord C1 exon
chr2:25160805-25160926
Coord A exon
chr2:25160733-25160804
Coord C2 exon
chr2:25160558-25160732
Length
72 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGT
5' ss Score
11.45
3' ss Seq
AGCTCCAGGGTCCCGCGCAGGCA
3' ss Score
0.13
Exon sequences
Seq C1 exon
CGAGGACGACGCTGCCACCGTATACCGCGCAGCCGCGATGCTGAACATGACTGGCTCTGGGTACGTGTGGCTCGTCGGGGAGCGCGAGATCTCTGGGAATGCCCTGCGCTACGCTCCTGACG
Seq A exon
GTGAGTGCTGGGCTGTGGGGTCGCCTGGGACTGTAGGCCAGTCCAGTCTCTAAGCTCCAGGGTCCCGCGCAG
Seq C2 exon
GCATCATCGGACTTCAGCTAATCAACGGCAAGAACGAGTCGGCCCACATCAGTGACGCTGTGGGCGTGGTGGCACAGGCAGTCCACGAGCTCCTAGAAAAGGAGAACATCACTGATCCACCGCGGGGTTGCGTGGGCAACACCAACATCTGGAAGACAGGACCACTGTTCAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026959-Grin1:NM_008169:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.068
Domain overlap (PFAM):
C1:
PF0109423=ANF_receptor=FE(12.8=100)
A:
NA
C2:
PF0109423=ANF_receptor=FE(18.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGAACATGACTGGCTCTGG
R:
TTCTAGGAGCTCGTGGACTGC
Band lengths:
181-253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: