MmuINT0074011 @ mm9
Intron Retention
Gene
ENSMUSG00000026959 | Grin1
Description
glutamate receptor, ionotropic, NMDA1 (zeta 1) [Source:MGI Symbol;Acc:MGI:95819]
Coordinates
chr2:25147767-25150068:-
Coord C1 exon
chr2:25149958-25150068
Coord A exon
chr2:25148005-25149957
Coord C2 exon
chr2:25147767-25148004
Length
1953 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGG
5' ss Score
10.38
3' ss Seq
TTGTTGGTTCTTATTTATAGAGC
3' ss Score
6.94
Exon sequences
Seq C1 exon
GATAGAAAGAGTGGTAGAGCAGAGCCCGACCCTAAAAAGAAAGCCACATTTAGGGCTATCACCTCCACCCTGGCCTCCAGCTTCAAGAGACGTAGGTCCTCCAAAGACACG
Seq A exon
GTAAGGGGAAGCACCCCAGTCCCGCGTCTCTGACTCCCCCCTTGCCCCATGTCTGTCTCCCTCTCCCTTACCATCCCACCCCTGCCCCCATCTTCAACCCTGGCCATCTGTGCCAAGTCAGTCCTTCACCCACCCTCCACCCATTAAAGGGTGCTGTCCTTTAGAACGCTCCAGACCTCTCCTCAAGCCCTCACTTGCCCTCAGCTTCCCCATGTGTCTCCACGTTAGTCTGCCCACCTCTCTCCCCATGCCATGACCCACACGCCATCTGGAAGCTGTGTCATGTTGTTGGTCAGTCAGTCAGCCTCACTGCCTCTCTGGGCTACCCGGACCCTGGGAACCAGAGTAGCCCTGTCCCAGGCTGCCCCTGCCAGGAGGCCACACCACGTCTGTTTCATCCCTGTTTCTCCACACGGGGCTTGATGCTTTCATTCTTGCCCTGCAACAGCCCTGCAGGGTGTAGCTGTGATGTCCCATCCGTCCGTCTGTCTGGCCACTGGCCCCGCCCCCCAGACACCTGTCTCACCTGTCTCACCAGAGCCATGCGTGTTGCATCTTCCATGTGGTCTCTGTGTGGGCCGGGGGCTGGGGGCCGGGCCTGGGTCCATCTGGGTGGACGACTGGGGCCTAGCATTGGCATTGACCCTTGGTTACAGGGAGACTGTCAGGTGGGGAGTGGGGTGTTGCCATGGTGAACAGGTCCCTGATGGAGGTGTGGCAGCAGCACCCAGGTGATCTGAGCATGGATAGGGTGTTCTTGAAAGGCCTGGGGCCTGAGCACCTAAGGCAAAACAGGTTCTCAGAAGGAGGTCCGGGAAGGGGAGGCTAAGAACTGTGTTCCCGCTCAAACCCCCAAGCACTGCCACGGGCCACTGTCAGAGTCAGACCTTCTGCCTTCTGAGCCAGAAAACGGTTCCCTGTCTTGGGCAGCGTCACATCACCGCACCAGCAGTACATGCTCACAAGAAAGTCCTCCAGCAGGCTCGCTTTTTGCTAGAGTCACCCTGATCCTATGACGTTACCCTTTAACAGGCCCACAGGAAGCCCTCTAACCAGTGGGGAGTGTCACCCACAAGGGGCTTGTGTCCCACAAGGAATCTGGATCTATAGTTATGCTCCTATGCCCAGGAAGAAAGGCATACTGACAGGATTTGGCACAAAGCAAAATGTACTAGGGTGCTCCAGAGAGACCCACAAGGCCTGGCTGCTCAGCTCTCCAAAGGCCTTGGTTCAGAAAAAGGGGATGAAGAGTAAGAATCTGTGGTTTGCACCAACTTGAGGCTCCAGGAGCTGGTGGTACAAACACTATCTTCAGGGTCACCCAGACCAGGGAAAGTGGGCAAGGTCTATGTTACAAGGTCTGAATCAGAACCCCCACTAGGGGGCGCAGGGGTGGAAGAGCAGGGCCAAGGGAGCTGTGGGCTGGAATTTGTGTGGGGAAGGGGAAATCTGACAGGGAAGAAGAAGATCTGTACTTTTGGGGCCAGATGGCCATAGTGGGGAAGGCACAAAAGTCCTGCAGGTGGCAGGCCATTTTCAGTGGATGTCACTAAGTCTTGGGGCTCCATCTGGAGCTGGCCAGGTACAACTCAGAGATCTACGTGGTTCCTTTCTGGGGCCTTGCTCTCAGTTCAATCTTTACCTGAGCCTCCCTGGGCACCAGGGACCCGTTCTTCTGGGCCATCTGGAGCTGGCCCCACCCTGCAGGGTTGACCTCTGGGGGCTGGGTGGGGGAGGGAAGCCCAGCTTCCACCCTGTCTCTGGGGCTGGGTGCTGTTCAGAGGGAGGCCTGGGTGGGGGCTCCTTTGGGTGGGGTGGGGTCGGTCCAGCTGCTGAGATCCTTTGCCCCTGTCCTGTGGCCGGTCCGGGCCAGGGCAGCACTGGGCGCTCAGGGCTGGGATCCCTGGTGGCCGGCGGGGCCAGCAGGTATTGATTGTTGGTTCTTATTTATAG
Seq C2 exon
AGCACCGGGGGTGGACGCGGCGCTTTGCAAAACCAAAAAGACACAGTGCTGCCGCGACGCGCTATTGAGAGGGAGGAGGGCCAGCTGCAGCTGTGTTCCCGTCATAGGGAGAGCTGAGACGCCCCGCCCGCCCTCCTCTGCCCCTCCCCCGCAGACAGACGCACGGGACAGCGGCCTGGCCCACGCAGAGCCCCGGAGCACGACGGGGTCGGGGGAGGAGCACCCCCAGCCTCCCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026959-Grin1:NM_008169:19
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.635 A=NA C2=0.579
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAAGAGTGGTAGAGCAGAGCC
R:
CTGTCCCGTGCGTCTGTCT
Band lengths:
278-2231
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
Other AS DBs: