MmuINT0074013 @ mm9
Intron Retention
Gene
ENSMUSG00000026959 | Grin1
Description
glutamate receptor, ionotropic, NMDA1 (zeta 1) [Source:MGI Symbol;Acc:MGI:95819]
Coordinates
chr2:25165895-25169124:-
Coord C1 exon
chr2:25168948-25169124
Coord A exon
chr2:25165996-25168947
Coord C2 exon
chr2:25165895-25165995
Length
2952 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
CGCTCCTGCTCATACCACAGGCA
3' ss Score
7.05
Exon sequences
Seq C1 exon
AGCATCCACCTGAGCTTCCTTCGCACCGTACCACCCTACTCCCACCAGTCCAGCGTCTGGTTTGAGATGATGCGCGTCTACAACTGGAACCATATCATCCTGCTGGTCAGCGATGACCACGAGGGCCGGGCAGCGCAGAAGCGCCTGGAGACGTTGCTGGAGGAGCGTGAGTCCAAG
Seq A exon
GTGAGGCCCTAGCCCTGAAGAGGTCCTTGTCCAGCAGGAGCAGGCGGGCCATGCCATGTCTGTGGCTCCTTGTGAACACTCTCTTTCCATCCTGCATGCTCAGCACCACTGCGTCTGGCGGCGCCCGCCCCGGCCTGTCCTCGGCTCATTTCACTTGCTTTTGCCATTAGTCGAAATCTCCTTCGTGTCAGTCCCTGCTGCGCGAGGGCTGGACCACCTGGAGCTCTGCAAACACCCCTGTCCCGCCCCCCACCAGCCTCAGGCCTCCCTGGCCCCAGCTTAGACTCAGCTCAGGACCTTCCCAGCCCCTCTCTGCCAGATGCCAAGTCCCATCTACCTTTCAGGAACACCGTCTACAGTCTCCTCCTCAGAGCACTGGATACAATCCATGCCCTCACAGAAACCACATCTTCTAAAAGCCTCATGTCTCATGGCTGCCCATGGCCCTAATTGAAGCCCCACTCATCTGCAGCCCCATCTCCACCTCGGCTACTCAGGCTCACACTGTGTCCCTACCTCCCTCCCACCTCAGGGCTTAGCTCTGCATCCCTCAAGGGACTATGTAGACACCGATCTCAGGATACACATACACTTCCATCTCAGCCTGGTCCCCAGTGTGTGGAACTGCCAGAGACCAGAGCTAGGATTTGAGGTAGAGGGGGTCAAAGTGACCCCTATGCCCTTCCTTGCCAACACCCATGTCGGCCTAATAAGGACCTGGCCCAGGACCCCCCTCAGTTCCAGGACACAGAGCACCAAGAAGCAGCTGGTTGGTGCTTTTCAGGTAGCAGAGAGGAGGAGGCTCAGGCTGGGGAGGGGCCCCAAAAGACAGATGGGGGAGGGGATGGGAGGGAGCATGTTTTGCCTGCAAAATCATAGCTGGCCTCATCATACTTAGCACCAACCATTGTCCCCACACCCAAGGTGCCATAGGCCTCTGGGGGGGGGAGGGAGTAGAGGGCATGGGTCGGGGTGGGAGTTGAGGATAGAGACAGGCCCAGGGTGAATCTTTTAGGGTGATCCATTGAGTCTGGGAAGGAGGACTGGTTATTAGCACCAAGGGCTCCGCCTCTCTGCAGATAGTTCCACTCTCAGCATCTGGCAGGTTCCTTCATACTTCTGCTGTGTCCGTCAAAGCCACACATACTATCAACCTACCCACATGTTCATCAGCCTGACCCCTGCACAATCAGCCACCTGCTCACAGACCCACAAGCACGCACGCACACATGCACGCACACACAGAGTTATTCAGTTCTTGGATATTTTAGTGGCACACCACACCTTTTGGAAAGACAGACCTCAGTCATCTCCGTGCATTTCTGAGCTGCACAAGAGGATCATATACAAGTGCTTCCTCTGTGACCCAGCTCACCCTCACTTGTAACCACAAGCTTAAACACATATTCACGTACACGTGCACACACACATGCTTAGACTATACTGCCTGCCCTTGCATCACTGACTGTCATAGATTTACCTTCTGTGGCAGGAGCATATCACCTCTGTAGGCATACAGATACACAACCAGTCTCAGACATTATTGTGGGCATTTGGGTGTGAGCATTCCGGTCAGTGAGAATGAGGAGGGCGGAGAAGGGGAAGGAGTGGGAGGGTCATAGAGACAGGGCCCTGCAGGCTGCTCCTCTTTCACTAAGAACTAATGTGGGTGTGGGTGGGTACTGCTGGGGCCACACAGCAGGTGCATGACAGGGGTGGGGGTGGCTTGCGGGAACCTCAAGGGTGGTGTGGACAGGGCTGCCCTCTCTTCTGAAAAAGACTTTCCAAGAGTATAGCTCCAAGGCAGGGAGCCTCTGTGGCCCTTGCCCCTGTGTCCCCTCCCCCCTCAGCTCCACCCCCGTCCTTAGCCCCACCCCGGGTCTCGGTGTTTGCGAGCTCCAGGTACGTGCCCGTCTGCAGACGTGCCGAGGAGGTGGTGTGATTGCTTTAGCGCCGTCATTTTCAACCGTTTATAATCTTCTTCTGTGTCTGCATATTTTCTCTGTGCACATTATTCATCAGAGTAAAAAAAGGAACTATGAAAACCTCGACCAACTGTCCTATGACAACAAGCGCGGACCCAAGGTATATATGCATGGACGTGCACGCCACCCACCGACTAGCGAGCCCCGGCCTGCGGTGCCTCAGCCACTGGGTGCTTTCTGGCCCCACCGCGCCGAGCCGAGCCGCAGGCCTGAGCAGTGAGGAGAGACAGGTGGTGAGGCAGGCAGCAGGCAGGCAGGAGAGGGCAGGGGTGGGCGGTGTGGGTGCCCATGGCCCACCCGCCGTGACCCTGGCCCGCATCCTCAAGACAAGCACGGTCACAGGAGGCGCTGCTCTGGGAAGTGCATGAATCTCCAGGTCCGCCAGGGTTTCCTAGCGGAACCCAGGGAGGGAGCCTGCCCACCTGGTCACTTCAGAGTCTGGGCTGCTCCTATAGGAGCAAGAGGAATCCGGTCTGAGCTGAGATCTCCCAAGGTTTTGGAAAAGTCAGCCCCATCTCTGTTCCTAGTTGCCTTCCAAAACTTTTCTATTTCCTGTTCGCTGCACGTCTCTTTCTAAGTCTCCGTCCATTTCAGCTTGCATGCTCAGAGCAAAAATTAAATTAAATTAAATTAAATTAAATTAAAAAAATTTTAAAAAAGGAACAAAAAACAAAAAACCGAGGACAGGAGTAAGACGGAAACAGACCTCGAGAAAGCAGACTGAGAGAAGAGCAGAGCTTGAGTGAGCACAGGACATCCAGCAAGTTGAAGAAGAGACAGGCAGCAAGGACAGGCCACACAGAGTGAGGAGAGTGAGGAGGCAGGCGCACAGTGCAGGTGGCAAGGACAGGCCACCTGCTCTAGCTAAGCTGCCTCGGGGTTTCTAGCAGCTTTGGCCCAACTCTTGCCACTGAGGCACAATGTTCCCTTTCCCAACTACTTGCTAACGCTCCTGCTCATACCACAG
Seq C2 exon
GCAGAGAAGGTGCTGCAGTTTGACCCAGGAACCAAGAATGTGACGGCTCTGCTGATGGAAGCCCGGGACCTGGAAGCCCGGGTCATCATCCTTTCTGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026959-Grin1:NM_008169:3
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.144 A=NA C2=0.088
Domain overlap (PFAM):
C1:
PF0109423=ANF_receptor=FE(18.1=100)
A:
NA
C2:
PF0109423=ANF_receptor=FE(10.3=100)
Main Inclusion Isoform:
NA
Other Inclusion 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:
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: