MmuINT0074005 @ mm9
Intron Retention
Gene
ENSMUSG00000026959 | Grin1
Description
glutamate receptor, ionotropic, NMDA1 (zeta 1) [Source:MGI Symbol;Acc:MGI:95819]
Coordinates
chr2:25152668-25153002:-
Coord C1 exon
chr2:25152890-25153002
Coord A exon
chr2:25152817-25152889
Coord C2 exon
chr2:25152668-25152816
Length
73 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
ACCCAAGTCTCTGCCCACAGGTG
3' ss Score
8.62
Exon sequences
Seq C1 exon
TCCCTTTGGCCGATTTAAGGTGAACAGCGAGGAGGAGGAGGAGGATGCACTGACCCTGTCCTCTGCCATGTGGTTTTCCTGGGGCGTCCTGCTCAACTCTGGCATTGGGGAAG
Seq A exon
GTGAGGTTAAGCCCAGGGCCTGGATGGCTGCATTCCCAGCTTTCCAGGAACTGACCCAAGTCTCTGCCCACAG
Seq C2 exon
GTGCCCCCCGGAGTTTCTCTGCTCGTATCCTAGGCATGGTGTGGGCTGGTTTTGCCATGATCATCGTGGCTTCCTACACTGCCAACCTGGCAGCCTTCCTGGTGCTGGATAGGCCTGAGGAGCGCATCACAGGCATCAATGACCCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026959-Grin1:NM_008169:13
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=0.040
Domain overlap (PFAM):
C1:
PF0049715=SBP_bac_3=FE(11.1=100),PF0006021=Lig_chan=FE(14.3=100)
A:
NA
C2:
PF0049715=SBP_bac_3=FE(14.3=100),PF0006021=Lig_chan=FE(18.4=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:
GTCCTGCTCAACTCTGGCATT
R:
CTGGGGTCATTGATGCCTGTG
Band lengths:
176-249
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: