MmuINT0074016 @ mm10
Intron Retention
Gene
ENSMUSG00000026959 | Grin1
Description
glutamate receptor, ionotropic, NMDA1 (zeta 1) [Source:MGI Symbol;Acc:MGI:95819]
Coordinates
chr2:25303907-25305212:-
Coord C1 exon
chr2:25305038-25305212
Coord A exon
chr2:25304052-25305037
Coord C2 exon
chr2:25303907-25304051
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:ENSMUST00000114312:6
Average complexity
IR
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
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
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types