MmuINT0074016 @ mm9
Intron Retention
Gene
ENSMUSG00000026959 | Grin1
Description
glutamate receptor, ionotropic, NMDA1 (zeta 1) [Source:MGI Symbol;Acc:MGI:95819]
Coordinates
chr2:25159427-25160732:-
Coord C1 exon
chr2:25160558-25160732
Coord A exon
chr2:25159572-25160557
Coord C2 exon
chr2:25159427-25159571
Length
986 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGC
5' ss Score
6.32
3' ss Seq
AAGCTATCCTCTCTTCCCAGGGT
3' ss Score
6.94
Exon sequences
Seq C1 exon
GCATCATCGGACTTCAGCTAATCAACGGCAAGAACGAGTCGGCCCACATCAGTGACGCTGTGGGCGTGGTGGCACAGGCAGTCCACGAGCTCCTAGAAAAGGAGAACATCACTGATCCACCGCGGGGTTGCGTGGGCAACACCAACATCTGGAAGACAGGACCACTGTTCAAGAG
Seq A exon
GTGGGCGGGGTTGCTCTCAGTAGGTGGGTGGAGTCATCGTTTAGCTGTGGGGCGGGGGACGGGGGGAGGGGACGGGGGGCGGGGGACGGGGGCGGGGCTCACTCTTCCAGGGGTGGTCCAGCCGGTCTTATCTAGGACAAGCTATATGGTTAGTCACCTCCATCGCAAATCCATATTCCTAGCACCACATTTCCTGTCTTTACTGTGATAATCATCCCCTTTCTCACCACTGCCCTTACCTCTTCCGCTGTCACTGAAGTTGTGGCTGCCTCCACTTCTCCACGCCTTCCTGTCCATACTGCAGATTTTATTTCACTCCCCACCATGCTTGGTGCTCCAAAAGGAAGTTCTTGCTGCAGGTGGTGCCTGGGATATTCTAGGAACACAGAAATTCAGAGTAGGCATCCAAGGACAATAGAGATTCAAGGCTGATCAAGGGAATGGCTGCAGAATTCCAGAGTCACTGTCAACAGTTTCCCGTGTGTCTGTGCAGTTACAGGATGAATACACATGCCATTGAATGCACAGAAACATGACGTATGTATGCCACAAGCACACTCATAGGGGTGACCCTATACTTCAGTTGCATGCACACAGGCTCACTGATATGCTCCACTGAGCAAACATACAGCCAGGCAAGCCACCCAGAGGCTAGAGCTAGGTACAGGCTCCATCTACTTCCCCCATTTGATGGCAAATGGGCCTGAAGTTCTCTGGGCTTCTGCTTTCCCTGTAAAACAAGGGTGGCAGCTATGACAACCACTTGTCCTAATCCAGAGATGTCTTTGACGTAGCTTCGGATGCAGTGGCTGTGTTGTCCATCTGCTGCTGGCAGGCAGGCACCATGGCCTCCAGTCTGGTTGAGGAGTTACCATCTGCTAATCTTTCCTTTCTTGAGACTAGGGCAGAGGAATGAGAGCTTGGGCCACTTGGAAGCCAGTAAGAACAGGTGTTCTTGATAAGTTTAAGCTATCCTCTCTTCCCAG
Seq C2 exon
GGTGCTGATGTCTTCCAAGTATGCAGATGGAGTGACTGGCCGTGTGGAATTCAATGAGGATGGGGACCGGAAGTTTGCCAACTATAGTATCATGAACCTGCAGAACCGCAAGCTGGTGCAAGTGGGCATCTACAATGGTACCCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026959-Grin1:NM_008169:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.068 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0109423=ANF_receptor=FE(18.1=100)
A:
NA
C2:
PF0109423=ANF_receptor=PD(10.6=69.4)
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:
GCATCATCGGACTTCAGCTAA
R:
TTGTAGATGCCCACTTGCACC
Band lengths:
310-1296
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: