MmuINT0074019 @ mm9
Intron Retention
Gene
ENSMUSG00000026959 | Grin1
Description
glutamate receptor, ionotropic, NMDA1 (zeta 1) [Source:MGI Symbol;Acc:MGI:95819]
Coordinates
chr2:25153706-25154055:-
Coord C1 exon
chr2:25153914-25154055
Coord A exon
chr2:25153834-25153913
Coord C2 exon
chr2:25153706-25153833
Length
80 bp
Sequences
Splice sites
5' ss Seq
GCCGTGAGT
5' ss Score
8.56
3' ss Seq
TATTCCCTAACTGCTCACAGCAC
3' ss Score
4.69
Exon sequences
Seq C1 exon
ATAGTGACAATCCACCAAGAACCCTTCGTGTATGTCAAGCCCACAATGAGTGATGGCACATGCAAAGAGGAGTTCACAGTCAATGGTGACCCTGTCAAGAAGGTGATCTGTACGGGGCCTAATGACACATCCCCAGGAAGCC
Seq A exon
GTGAGTACTAGGCAAAGTGTGGCAGGGCGAAGGGACTCCAAATCAGGAACCCACAGTTAATATTCCCTAACTGCTCACAG
Seq C2 exon
CACGTCACACAGTGCCCCAGTGCTGTTATGGCTTCTGCGTTGACCTGCTCATCAAGCTGGCACGGACCATGAATTTTACCTACGAGGTGCACCTTGTGGCAGATGGCAAGTTTGGCACACAGGAGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026959-Grin1:NM_008169:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.292 A=NA C2=0.023
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0049715=SBP_bac_3=PU(10.2=81.4)
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:
TGGTGACCCTGTCAAGAAGGT
R:
TGTGTGCCAAACTTGCCATCT
Band lengths:
180-260
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: