MmuINT0074009 @ mm9
Intron Retention
Gene
ENSMUSG00000026959 | Grin1
Description
glutamate receptor, ionotropic, NMDA1 (zeta 1) [Source:MGI Symbol;Acc:MGI:95819]
Coordinates
chr2:25151312-25151654:-
Coord C1 exon
chr2:25151545-25151654
Coord A exon
chr2:25151458-25151544
Coord C2 exon
chr2:25151312-25151457
Length
87 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGC
5' ss Score
9.1
3' ss Seq
CTGAGGGTCCCTTCACACAGGGG
3' ss Score
5.42
Exon sequences
Seq C1 exon
GTCCCATGAGAATGGCTTCATGGAAGACCTGGATAAGACATGGGTTCGGTATCAAGAATGTGACTCCCGCAGCAATGCCCCTGCCACCCTCACTTTTGAGAACATGGCAG
Seq A exon
GTGCGCCTTCCATGCTGCCGTGATCCTGGGATGGATTCTCTTGGGGCTCTAGCCTCTGGGCAGGCTGCTGAGGGTCCCTTCACACAG
Seq C2 exon
GGGTCTTCATGCTGGTGGCTGGAGGCATCGTAGCTGGGATCTTCCTCATTTTCATCGAGATCGCCTACAAGCGACACAAGGATGCCCGTAGGAAGCAGATGCAGCTGGCTTTTGCAGCCGTGAACGTGTGGAGGAAGAACCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026959-Grin1:NM_008169:17
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=0.005
Domain overlap (PFAM):
C1:
PF0049715=SBP_bac_3=PD(5.0=44.7),PF0006021=Lig_chan=FE(13.9=100)
A:
NA
C2:
PF0006021=Lig_chan=PD(3.4=18.4),PF105624=CaM_bdg_C0=WD(100=59.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGCTTCATGGAAGACCTGGA
R:
ATCCTTGTGTCGCTTGTAGGC
Band lengths:
181-268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
Other AS DBs: