MmuINT0074018 @ mm10
Intron Retention
Gene
ENSMUSG00000026959 | Grin1
Description
glutamate receptor, ionotropic, NMDA1 (zeta 1) [Source:MGI Symbol;Acc:MGI:95819]
Coordinates
chr2:25298394-25303809:-
Coord C1 exon
chr2:25303726-25303809
Coord A exon
chr2:25298536-25303725
Coord C2 exon
chr2:25298394-25298535
Length
5190 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGG
5' ss Score
5.87
3' ss Seq
GTTCTTATCTTTCCGTGCAGATA
3' ss Score
9.91
Exon sequences
Seq C1 exon
GTCATCCCAAATGACAGGAAGATCATCTGGCCAGGAGGAGAGACAGAGAAGCCTCGAGGATACCAGATGTCCACCAGACTAAAG
Seq A exon
GTGGGGACCCCACACTCCCCAATATTACCATCTGTGATGTTTCATCTATTCCTTCAGGCCAGGGGGAAAGGGGATGAAGTCACAGAACACAGATAGAGGAGGTGGAGGCTGTGCCAGCACCTGGCTCTGGCGCACATGGCAGAGGAAGCAGGTGTGGAGGTGGGGGAAGGAGGAGCAGCAGTTTCTGCCCAACAGGGTCTTTGCAGTACTCTATCCTGGCCCAGCTCTAGTCCAAGGAAGAACTGGCAGAGGCAGAGGGACAGTGGGTGGATGCTTTGGGTCCCAGTGCAGAGTTTAGCTTTAAAAAGTGTCCTATTTCTCCTTGGGCACCCAGGAACCCCTTCTTAAGCTGTCTTCTTCCTGTATAGTCTCTTTTCCTCGGCCTGATTTACACTTTCCTTGGGTTCATCCATGGACCCCTCCCTCTGCCTAAGGGCTATTCTGAGAATTCCTCTTTACGATGAGCCACAGTGTTCCCAGCTCTGATACTGTAGATCACCAAAGGCAGCCTCTGCAGTGCCAAGTGCCTAGCCAACCTTCTCTTAGTGCCTTCATCAAATGTCTCAGCCCTACTAACTCTCTGAGCTAACCCCTGCAGTGGGGGCTCATTCTCCAGTGAGTACCTGCCTGCAGTTCTCACAGGACAGTGAGAGTGTCGCCTTGCAAGGCCTGTGTGATAACTGTTTGCAGTTCAGGCACCTAGTGTTGAAAAGTGTGAGAGTGCAGGGAGGTGGTGGCATGTCCCTTTAATCCCAGAGGCAGCGGCACACAGATCTCTATGGGTTTGAGGCCAGCTTGGTCTACACAGCTTATTCTAGGACAGCCAGGGCTACACAAAGAAACCCTGTCTTGAAAAGCCAAGGGGGAGGGCTGGAGAGATGGCTCAGCCCTTAGTAGCATTGGCTGCTTTTCCAGAGGTCATGAGTTCAATTCCCAGCAACCACATGGTGGCTCACAACCATCTGTAATGGGATCCAACGCCCTTTTCTTGTGTCAGCGACAGCATGTTCATATACATAAAATAAATAAGACTTAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGGAAGAAAGAAAGAAAAGGAAGAAAAGAAAAGTCTAGGGAGAGAGGGGGTCTGAAGGCTGTAGTCAAACATCGATAACCAGAAGCATCCATCACGATGCCAATGGCTGTTAGGAATGTTTCTGGCCTCACTGGTTTGTTCAATTTGATTTTATATGTATGAGTGTTTTGCCTACCTGTATATGTAGATACCATGTGCTCTCCTGGTGCCCACAGAATTCAGGATATTGGATGGCCTGTAACTGGAATGGATGGTTGTAAGCCACCGTGTGGGCGGTAAGAACAGAAACCGGGTCTTCTGTAAGACCTTCGGGTGCTCATAACTGCTCACCCACTTGTCTAACCCCATCACTAATTTTTTTTTTTTTGACAGCGCTAGCAAAAACACATAATAGAAAAATATGATCCTGCTTCCTTCTCTCTTCCTTCTCAAGACTCCCAGTGAGGGCACCTCCTCCAGTGCCTGTCACCATGCCTTGCCTCACTGTCCACTCCTGCCTGGGCTACCTACCCCTCTGTTTTTTGCATCCGATATAGACCCTCAGAAACCAACTGTGTTCCACTCTGGCATCCCCCAGACTTCTACCTGTCCCTCAACTATGAAACTGTAGACCCTAGAGAATAGGGAGGGAGAATGTCAAAGCTGAAGAGGCAGCCTTGAAAGAGAAGCATTAACTAGGCATGGTGGAGCATGCCTTTAAACCCAGCACTTTGGAAGTAGATGAACAAGAATCAGAAGTTCAAGGTCCTCCTCAGCTAAAAGCCAGCAGGGACAGCCTTGACTCTATGAAGGCTCTTTCTTTTTTGTGGTGGGACATCAAGAAGAGTTCATTTGGCTTAGACTTTCATATTGTGTTCCATCATTGAAGGAAGTCAGGACAGGAACTTAAACCGGGCAGAAGCCTGGAAGCAGGAGCTGATGCAGAGGCCCTGGAAGGGTGCTGTTGATGCAGAGGCCCTGGAGGGGTGCTGCTGATGCAAAGGCCCTGGAGGGGTGCTGCTGATGCAGAGGCCCTGGAGGGGTGCTGTTGATGCAGAGGCCTGGAGGGGTGCTGCTGATGCAGAGGCCTGGATGGGTGCTGCTGATGCAGAGGCCCTGGAGGGGTGCTGTTGATGCAGAGGCCCTGGAGGGGTGCTGTTGATGCAGAGGCCTGGAGGGGTGCTGCTGATGCAGAGGCCTGGAGGGGTGCTGCTGATGCAGAGGCCTGGAGGGGTGCTGCTCACTGGCTTGCTCCTTATGGCTTGCTTGGCTTGCTTTCTTATAAAACCCGGAACCACCCGCCCAGGGTGGCTTCACCTACCATGGGTTTGCCCCTCTCTCCTTCAATGGCTATTTAAGAAAATGCTTTACAGGCTGGCCTATAGCCTAATCTTATGGAGGAATTTTTTCTATTTTTTAAAATTAATTTATTCCTCTCTAGTGTATTACATCCCAACTGTACTCTCCCTTTCATCCCTGTCTTAAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGGAAGGAAGGAAGGAAGGAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAAGAAAAGCATGCCAGGCAATGGTGACACACACTTTAATTCTGTCACTCAGGAGGCAGAGGCAGGAACAGATAAATCTCTGTGAGTTCAAGGACAGCCTGGTCTACAGAGCAAATTTCAGGATAGCCAGGGCTACACAGAGAAACCTTGTCTTGGAAAAAACAAACAAACAAACACAAAACAAAAAACAACAAACAGGAGCTGTAGAGATGGTTCAGTGGTTAAGAGCACTGGCTGCTCTTCAGAGGTCCTGAGTTCAATTCCCAGCAACCACATGGTGGCTCACAACCATCTACAATGAGATCTGATGCCCTCTTCTGGTGTGTCTGAAGACAGCCACAGTGTATTCACATACATAAAATAAATAGGTCTCAAGCCGGGCGTGGTGGCACACGCCTTTAATCCCAGCACTCGGGAGGCAGAGGCAGGCGGATTTCTGAGTTCGAGGCCAGCCTGGTCTACAAAGTGAGCTCCAGGACAGCCAGAGCTATAAAGAGAAACCCTGTCTCGAAAAACCAAAAAAAAAAAAAAAAATCTCTCTAAAAAACAAACAATGCTGAGGTGGTAGGAAATACCTTTAATCCTTGTATTCAGTAGGAAGAGTGGGGTGGAGCTCTGTCAGTTCAAGGCCAGCATGGTCTACAAAACAAGTTCCACACCAGCCAGAGCTACAAGGCAAAGATACAAGACCCTGACTAAAAAAAAAAAAAAAAAAACAGGGCTCAGTGGGTAAGAGCACCCAACTGCTCTTCCGAAGGTCTAGAGTTCAAATCCCAGAAACCACATGGTGGCTCACAACACAACCATCTGTAATGAGATCTGATGCCCTCTTCTGGAGTGTCTGAATACAGCTACAGTGTACTTGTATATAATAAATAAATCTAAAAAAACAAAAAATAAAAAAGTAACTAGCCCAGTGGGTCACATGAATGTGGATCCCAGCACCCATGTAAAAGTCTGGACATGGCTGCACACTGTGCCCATCATAGCCCTTGGTAGAAGGAGTGGGCAGAGGCAGGTTGGTCACAAAGCTGGCTGACTAACCAATGCAGCACAGTTACTGTGCTCCAGGCTTAGAAGAAAACTTGTCAAAAATAATATTAGTGATAATGATAACAATAATAAAAAACAGTGGGACTGGAGAGATGGCTCAGTGGTTTAGAGCCCTGGCTATTCTCCCATAGGACCCGGGTTCAAGTCCCAGTACCCACACAGCAGCTCACAACCATCTGTATCTATAGTTCCAGGGGATCTAATGTTCTTTCTGACCTCTGTGGGTTCTGTATGCACCTGGAGTACAAACGTGTATGCTGGCAAAACACCCATACACTTAAAATAGAGAAGATATTCTCTCAGAGGTTAAGAGAAATTGTTGCTCTTCCAAAAAAAAAAAAAAAAAAAAAAAAAACTGGGCTCAGTTCCCAGCACCCACATGGTAGTTACAACTATGTGTAGCTTCAGTTCCAGGGGATTTGACGCCTCCTTCTGGTTTCTGTGGACCCCTGCATGTACGTGATACACATACATACACTGAGGCACACACACACACATAAGATAAAAACAAAAGATAAATATATAAGTGATAAAAGTGATAGAGAAAGACATGGGGCATTATCCTCCATCCTCTGTGTACTTGCTCATATACATGAATACACAGGAACACATACATACATATAAACATATACATACATGTAAACATGTATACATATATACATACATATAAAACTACCTAAAAGGTAGTTTTTTAAAAGATGAGGATCAAAGACTGAAGGCTACATGCCCATGGAGGCCAGGGTAGCTTTGGAAAGGACACAGCCTTTCTGCTCCCTGATTTGTCCGAGACAGTGCCTGGTGCACACTTCCTGCACAGTAGCACTATGATAGAATAATGTATAAAGGGGCTGGAGAGATGGCTCAGTGGTTGAGAGCACTGACTGCTCTTCAGAAGGTCCTGAGTTCAATTCCCGGCAACCACATGATGGCTCACAACCATCCGTAATGAGATCTGGCACCCTCTTCTGGAGTGTTTGAAGACAGCTACAGTGTACTTACATATAATAAATAAATAAATCTTTTTTTAAAAAATCTGAAAAATAAAAGAAGAATGTATAAGCTTAAGCTGCAGCCTGAGAGAAAGGGGCCACAGGAGAGGTCGCAGTACTGCAGGATGCATTTTTTGATGAGTCAGGGCAGGTGGCTATAGATGTCTGTGCCCTGCCTCAGCATCACCACAACCCCAGACCTGGATCTGTCCCCAAGGGTAGCAGGCAGGCAATACTAGCCATGTCAGAAGGATGTGGACTGACTGAAAATCAGAGGGAGGCTTTAGGCTTGGGATTTACTGCAGCACTGGAAAACATGAAGAAGAAGGTCACTGTGTGCTGAGGAGCCAGCACCTGGAAATGACCAAGGCCAGGTGGCCCCGGCTAGTTCTTATCTTTCCGTGCAG
Seq C2 exon
ATAGTGACAATCCACCAAGAACCCTTCGTGTATGTCAAGCCCACAATGAGTGATGGCACATGCAAAGAGGAGTTCACAGTCAATGGTGACCCTGTCAAGAAGGTGATCTGTACGGGGCCTAATGACACATCCCCAGGAAGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026959:ENSMUST00000114312:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.250 A=NA C2=0.292
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF106134=Lig_chan-Glu_bd=PU(7.6=10.4)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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