MmuINT0074010 @ mm10
Intron Retention
Gene
ENSMUSG00000026959 | Grin1
Description
glutamate receptor, ionotropic, NMDA1 (zeta 1) [Source:MGI Symbol;Acc:MGI:95819]
Coordinates
chr2:25291181-25295937:-
Coord C1 exon
chr2:25295792-25295937
Coord A exon
chr2:25292129-25295791
Coord C2 exon
chr2:25291181-25292128
Length
3663 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
TGTGTATTTCTATTTTACAGCAG
3' ss Score
8.57
Exon sequences
Seq C1 exon
GGGTCTTCATGCTGGTGGCTGGAGGCATCGTAGCTGGGATCTTCCTCATTTTCATCGAGATCGCCTACAAGCGACACAAGGATGCCCGTAGGAAGCAGATGCAGCTGGCTTTTGCAGCCGTGAACGTGTGGAGGAAGAACCTGCAG
Seq A exon
GTAGGACAGGCCACCCTCCGAGGCCTGGCGTCCAGGGCCCCGCCAGGCCACGGCCCTACTCTATCCCTACAGGCCGTGGCACTGGCTCTGGCTCATGGGCAGGACTGGTGCTAGGAGCCATGGCCAGGGGCAGTGGTGAGTGTTCCCAAGGCACAGGGGCAGCACAGGCAGGGGCTGCCTGCAGGTGGCCACCCACTGCCAAGCTGGGCCAAGGGAAGCCATGCACCCTGCTTCAAGCCTCTGCCCGGCCCCTCTGTCTCCAAGGTCAGCTACTGGCACCCAATCCATAGGAAGGCAAGCAGGCAGGGTAAGACAAGGGCCCTCCTGTGTGAACCTGAGATGCATTATCCTTCTATCATCCAAGCACCTCTGACACCATCTGGGGACCCCTTTTCATGCTGTGTCTTGCTTTGTGATTCCAAATCTAAATGCAGCTGATCTGCCTCAGGCCACATCCGTGTGGATTTGTGGTTAGTGGGGATGAGGCTGCATGTCAGAGCCCACCAGGGAAAGGGACAGGGTGGGCAGTGAGGCTCACACAGGCCTGAAGACTAGTGGCCAATGGTCAGGATCCGATTCACTTGTCTCTTCTCTTTCTCTGGGTGTCTTCCTGGAGCTGTGTCCTGAGCTGGCATTAACATTGCAATGAGGGCTATGGGCGGACGGGGCTATTGGAGCCCCCATACCTCTCATCCACCCATTCTTGCTTTTGGCCCTACAGGTCCCCTGGGGACCTGGCCACAACTGTCCAGGGCCATGCTGGCCATCAGACTCCAGGCCAGCGTCCCCGGATCTGCCTCTGTCTATCACTCCAACTCCAACAGGACATTTCCTCGGGTCCTTGGCCCTTTCCTGGTGTGTGCCCTTTGGGGTCAGCAGCCTCTGAACAGAAAGGCTGGTGTGGCCTGAGGGGAAGCTCTTCCTGTCCTCAGAGGCTCCTCCTCCTCAGGATGCCTCTAAGCCAGGGCCACCCAGGAGCCAGGGAGCCAGGCGGACATCCCAGGAAGAGTGCCGTCAGGACCCCCCAAGCCCAGACCCAGCACAAGCAAGGACAGGCCCAACCCCGGGCAGAAGAGGCCACTCTTGAAAGTCTGGCTGTTGGTCCGTCTTTTCAGCACAGTGAGGCAGGCAGGAGTCAGGGCCTGAGTGACCTGCCAGGCCTGGCAGCGGCCCCAAGGAGCAGGCAAGGGCAGGTGTGGCCGCCACCCTTAGTTGTCTAATCGCTTATACATATTCATTTTAGGATAGAAAGAGTGGTAGAGCAGAGCCCGACCCTAAAAAGAAAGCCACATTTAGGGCTATCACCTCCACCCTGGCCTCCAGCTTCAAGAGACGTAGGTCCTCCAAAGACACGGTAAGGGGAAGCACCCCAGTCCCGCGTCTCTGACTCCCCCCTTGCCCCATGTCTGTCTCCCTCTCCCTTACCATCCCACCCCTGCCCCCATCTTCAACCCTGGCCATCTGTGCCAAGTCAGTCCTTCACCCACCCTCCACCCATTAAAGGGTGCTGTCCTTTAGAACGCTCCAGACCTCTCCTCAAGCCCTCACTTGCCCTCAGCTTCCCCATGTGTCTCCACGTTAGTCTGCCCACCTCTCTCCCCATGCCATGACCCACACGCCATCTGGAAGCTGTGTCATGTTGTTGGTCAGTCAGTCAGCCTCACTGCCTCTCTGGGCTACCCGGACCCTGGGAACCAGAGTAGCCCTGTCCCAGGCTGCCCCTGCCAGGAGGCCACACCACGTCTGTTTCATCCCTGTTTCTCCACACGGGGCTTGATGCTTTCATTCTTGCCCTGCAACAGCCCTGCAGGGTGTAGCTGTGATGTCCCATCCGTCCGTCTGTCTGGCCACTGGCCCCGCCCCCCAGACACCTGTCTCACCTGTCTCACCAGAGCCATGCGTGTTGCATCTTCCATGTGGTCTCTGTGTGGGCCGGGGGCTGGGGGCCGGGCCTGGGTCCATCTGGGTGGACGACTGGGGCCTAGCATTGGCATTGACCCTTGGTTACAGGGAGACTGTCAGGTGGGGAGTGGGGTGTTGCCATGGTGAACAGGTCCCTGATGGAGGTGTGGCAGCAGCACCCAGGTGATCTGAGCATGGATAGGGTGTTCTTGAAAGGCCTGGGGCCTGAGCACCTAAGGCAAAACAGGTTCTCAGAAGGAGGTCCGGGAAGGGGAGGCTAAGAACTGTGTTCCCGCTCAAACCCCCAAGCACTGCCACGGGCCACTGTCAGAGTCAGACCTTCTGCCTTCTGAGCCAGAAAACGGTTCCCTGTCTTGGGCAGCGTCACATCACCGCACCAGCAGTACATGCTCACAAGAAAGTCCTCCAGCAGGCTCGCTTTTTGCTAGAGTCACCCTGATCCTATGACGTTACCCTTTAACAGGCCCACAGGAAGCCCTCTAACCAGTGGGGAGTGTCACCCACAAGGGGCTTGTGTCCCACAAGGAATCTGGATCTATAGTTATGCTCCTATGCCCAGGAAGAAAGGCATACTGACAGGATTTGGCACAAAGCAAAATGTACTAGGGTGCTCCAGAGAGACCCACAAGGCCTGGCTGCTCAGCTCTCCAAAGGCCTTGGTTCAGAAAAAGGGGATGAAGAGTAAGAATCTGTGGTTTGCACCAACTTGAGGCTCCAGGAGCTGGTGGTACAAACACTATCTTCAGGGTCACCCAGACCAGGGAAAGTGGGCAAGGTCTATGTTACAAGGTCTGAATCAGAACCCCCACTAGGGGGCGCAGGGGTGGAAGAGCAGGGCCAAGGGAGCTGTGGGCTGGAATTTGTGTGGGGAAGGGGAAATCTGACAGGGAAGAAGAAGATCTGTACTTTTGGGGCCAGATGGCCATAGTGGGGAAGGCACAAAAGTCCTGCAGGTGGCAGGCCATTTTCAGTGGATGTCACTAAGTCTTGGGGCTCCATCTGGAGCTGGCCAGGTACAACTCAGAGATCTACGTGGTTCCTTTCTGGGGCCTTGCTCTCAGTTCAATCTTTACCTGAGCCTCCCTGGGCACCAGGGACCCGTTCTTCTGGGCCATCTGGAGCTGGCCCCACCCTGCAGGGTTGACCTCTGGGGGCTGGGTGGGGGAGGGAAGCCCAGCTTCCACCCTGTCTCTGGGGCTGGGTGCTGTTCAGAGGGAGGCCTGGGTGGGGGCTCCTTTGGGTGGGGTGGGGTCGGTCCAGCTGCTGAGATCCTTTGCCCCTGTCCTGTGGCCGGTCCGGGCCAGGGCAGCACTGGGCGCTCAGGGCTGGGATCCCTGGTGGCCGGCGGGGCCAGCAGGTATTGATTGTTGGTTCTTATTTATAGAGCACCGGGGGTGGACGCGGCGCTTTGCAAAACCAAAAAGACACAGTGCTGCCGCGACGCGCTATTGAGAGGGAGGAGGGCCAGCTGCAGCTGTGTTCCCGTCATAGGGAGAGCTGAGACGCCCCGCCCGCCCTCCTCTGCCCCTCCCCCGCAGACAGACGCACGGGACAGCGGCCTGGCCCACGCAGAGCCCCGGAGCACGACGGGGTCGGGGGAGGAGCACCCCCAGCCTCCCCCAGGCCGTGCCCGCCTGCCCGCCGGTCGGCCGGCTGGCCGGTCCACCCTGTCCCGGCCCCGCGCGTGCCCCCGACGTCGGAGCTAACGGGCCGCCTTGTCTGTGTATTTCTATTTTACAG
Seq C2 exon
CAGTACCATCCCACTGATATCACGGGCCCGCTCAACCTCTCAGATCCCTCGGTCAGCACCGTGGTGTGAGGCCCCCGGAGGCGCCCACCTGCCCAGTTAGCCCGGCCAAGGACACTGATGAGTCCTGCTGCTCGGGAAGGCCTGAGGGAAGCCCACCCGCCCCAGAGACTGCCCACCCTGGGCCTCCCGTCCTCCTGCTCTGCTGCCTGGCGGGCAGCCCCTGCAGGACCAAGGTGCGGACCAGAGCGGCTGAGGATGGGCCAGAGCTGAGCCGGCTGGGCAGGGCCACAGGGCGCTCCGGCAGAGGCAGGGCCCTGAGGTCTCTGAGCAGTGGGGTGAGGGGCCTAAGTGGCCCCGGTCGGAGGAGCCTGGAGCAGAAATGGCAGCCCCATCCTTCCTCCAGCCACTACCCCAAGCTACAGTGGGGGCCCATGGCCCCAGCTTGCTAGGTCACCCTCCACCCCTCCTCCAGCGCCTGCTCTCTGCAACCTGACTTCCACCTCTATCTCTCTTTCTCTCCTGCTGCACAATCCTCCCACGACCCTTCCCACCCCATTCACTGGGCTGGCTCCGACCTTTCCCAGGGCTAGCCTTCACTGCCCTAGTGGCAGCGCTTCCCAGGGGTGCTCTCTGGCTCCCAGATGTCTAGGGCTCCAGACTCCAAGAGGGCTGAGCCTTCTCTTCTGTCTGCAGCCACAATAGGCTTCCTCAGACGCTGGCTTGAGAGGAGCCCCGCACCTTGGGCACCAGGGAGTGCCATCCGCCTCCCAGTCCGGTGTCACTCACCCAACCTTGTACATGACTAGCTCTCCCAGTGTCCAAGCGCGTGCCTTCCCCGAGCCACTGGGGCGCAGCAGCGCGCTGCCCCTCTGCCCCAGGGACACCGGGCGCGCATAACCACCCCTAATCCCGGTATTCAGTGGTGATGCCTAAAGGAATGTCAGAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026959:ENSMUST00000114312:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.005 A=NA C2=0.327
Domain overlap (PFAM):
C1:
PF0006021=Lig_chan=PD(3.4=18.4),PF105624=CaM_bdg_C0=WD(100=59.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
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