HsaINT0072518 @ hg19
Intron Retention
Gene
ENSG00000176884 | GRIN1
Description
glutamate receptor, ionotropic, N-methyl D-aspartate 1 [Source:HGNC Symbol;Acc:4584]
Coordinates
chr9:140059638-140063214:+
Coord C1 exon
chr9:140059638-140059748
Coord A exon
chr9:140059749-140061862
Coord C2 exon
chr9:140061863-140063214
Length
2114 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
GATAGAAAGAGTGGTAGAGCAGAGCCTGACCCTAAAAAGAAAGCCACATTTAGGGCTATCACCTCCACCCTGGCTTCCAGCTTCAAGAGGCGTAGGTCCTCCAAAGACACG
Seq A exon
GTAAGGGGGAGAGCACCCCAGTCCCGCGTCCGACTCCACCTGCCCTGCCCTGCGTGTGTCTCCCGCCCCATCACCCCGCCCCGGACCCTGGGCTCCTGTGGCCCACTCTGCCCCTGTCTCCCTGTGGCGGCCGCTCTGCCCAGCCCGCCCATGCTGCTCTCTCTCACTCTCTGGACCTTTCTCCCCGGCCCTCCTGGGTCCTCGGCTTTCCCCGTGTGTCTCCGTTAGTCTGCCCGCCCACCTCCCCTGCCATGACCCACACGCCATCTTGAAGCCTGTCATCTCGTTGGTCAGTCAGTCAGCCACACCACCTCTCGGGGCCAGGTCTGGGGCCCTGGGAGCCCAGCGTGGCCCCATCCTGGACTCCTCAGCTGCCGGGAGGCCACACCACTTCTCTGTTATGTCCCCGTTTCTCTCGCCTCTCCCAGAGGGGCCCGCCGCCCTCACTTCGCCCCTGCGACGGCCCTGGAGGGGGTGGCTGTGATGTCCCATCCCGTCCGTCTGTCTGGCCACTGGCCCCGCCCCCCAGACACCTGTCTCACCTGTCTCACCAGAGCCATGCGTGTTGCATCTTCATGTGGTCTCTGTGTGGGCCGGGGGCTGGGGGCCGGGCCTGGGTCCGTCTGGGTGGACGGCTGGGGCCTGGAGTTGGAACTGGCCCCGGCCACAGGGGACTGTCAGGCAGGGAGTGGGGTGGGACCAAAAGGGGTGGCTCCCACCCCAGGCTGAGCGGGGGCCCTGCAGGAGGTGTGGCGGCAGCTCCCAGAGGGTCTGAGAATGGGTAGGGGCGGCCCCACAAGCCCTGGCCTGCAGAGCCCAGGACGACACTGAGGTTCCCAGACAGGGAGGCCTCTGGAAGGGAAACGACCACCTCAGCTCCTGACCCCAGCAACCCCACAAGGCCCACCCCAAAGAGCCAGGCCTTCTGCCCTTTGGAGCCCAGAATCCCCCACCTCCTGCTCGGGGCAGCTTGTCCCTGTAGCGGATATGCACACTCGGACCAGAGGCCCCCAGAGCGAACCCAGCCTTGCTAGAGGCACCCCAGGCCCAGGCACCATGGTGGGGAGGGGCTGCCCAGAGAGGCAGCGGAGACCTCAGCCCCGTGGCCACCCTGCAGTCCAGGGACCAGTCTGGCCCACAGGAAGCCCCCAGCCCATAAGCAGCATCACCAGAGAGAAGCTTACGCCCGGGGGAGGAAGTGCGATTTGCAGCCACCTGCCCCTCAGTGCACTGGAAGCGGGGCAGACCTCCAGGGCACAGACAGGACTTGGCATCAAGCAAGCCAAATCCCGAGATGAAGCCACCAGGGTGCCCCAAGAGGGACCCATGAGGCCTGGCTGCTCAGCTTCCTGGGGAAGGGACTTGGCATGCAGGATGGGTGGACAGTGAGAGCCTGTAGGCCTGGGGGCCACTGGAGGCTCAAGGAGCAGGTGGAAGCACCATTCCTGGAGCCACCTCTGCTGCGGAAAGCGGGCAGAGCTGATGCTGCAAAGTCTGAGCCAGGAGTCCCGCAGGGAACAGGGAGGGGGAATAGCGCAGGGATCGTGGGCTGGGCAGGCTGGGGAAGAGGGGGTGTCCAGGCAGACAGGAGAAACAGCGATTTGGGGCAGGCAGCCACGGGGGGCAAGCACAAATGTCGTGCAGGTGATGGGCCACTTTCAGAGGGTGACACTGGGTCCCAGGGCCCTGCCTGGAGCGAGGCCAGGTGCAGCTCAGAGACCCTCATGGTGCCCTCCCAGGGACATGTTCCCAGCGGAACCCTCACCCGAGCCTCTCTGGGCACCAGGGACCGTCCTCTGGGGCCAGTTCTGGCATCACGTGGCATCTGGGGCTGGCCCCGCCCTGCAAGGCTGAACTGTGGGGGGCACTGCCAGCTGGGGGTCTGGGCAGGGGAGGGCAGCCCAGCTCCCACCTGGTCTCTGGGGCTGCGAGCTTATTCAGAGGGAGGCGTGGGTGGGGGGCTCCTTTGGGTAGGGTGGGGTCAGTCCGGCTGCGGAGATCCCCTGCCCCTGTCCTGTGGCCGGTCCGGGCCAGGGCGGCACTGGGCGCTGAGGGCTGGGGTCCCTGGCGGCCGGCGGGGCCAGCGGGTATTGATTGTTGGTTCTTATTTATAG
Seq C2 exon
AGCACCGGGGGTGGACGCGGCGCTTTGCAAAACCAAAAAGACACAGTGCTGCCGCGACGCGCTATTGAGAGGGAGGAGGGCCAGCTGCAGCTGTGTTCCCGTCATAGGGAGAGCTGAGACTCCCCGCCCGCCCTCCTCTGCCCCCTCCCCCGCAGACAGACAGACAGACGGACGGGACAGCGGCCCGGCCCACGCAGAGCCCCGGAGCACCACGGGGTCGGGGGAGGAGCACCCCCAGCCTCCCCCAGGCTGCGCCTGCCCGCCCGCCGGTTGGCCGGCTGGCCGGTCCACCCCGTCCCGGCCCCGCGCGTGCCCCCAGCGTGGGGCTAACGGGCGCCTTGTCTGTGTATTTCTATTTTGCAGCAGTACCATCCCACTGATATCACGGGCCCGCTCAACCTCTCAGATCCCTCGGTCAGCACCGTGGTGTGAGGCCCCCGGAGGCGCCCACCTGCCCAGTTAGCCCGGCCAAGGACACTGATGGGTCCTGCTGCTCGGGAAGGCCTGAGGGAAGCCCACCCGCCCCAGAGACTGCCCACCCTGGGCCTCCCGTCCGTCCGCCCGCCCACCCCGCTGCCTGGCGGGCAGCCCCTGCTGGACCAAGGTGCGGACCGGAGCGGCTGAGGACGGGGCAGAGCTGAGTCGGCTGGGCAGGGCCGCAGGGCGCTCCGGCAGAGGCAGGGCCCTGGGGTCTCTGAGCAGTGGGGAGCGGGGGCTAACTGGCCCCAGGCGGAGGGGCTTGGAGCAGAGACGGCAGCCCCATCCTTCCCGCAGCACCAGCCTGAGCCACAGTGGGGCCCATGGCCCCAGCTGGCTGGGTCGCCCCTCCTCGGGCGCCTGCGCTCCTCTGCAGCCTGAGCTCCACCCTCCCCTCTTCTTGCGGCACCGCCCACCCACACCCCGTCTGCCCCTTGACCCCACACGCCGGGGCTGGCCCTGCCCTCCCCCACGGCCGTCCCTGACTTCCCAGCTGGCAGCGCCTCCCGCCGCCTCGGGCCGCCTCCTCCAGACTCGAGAGGGCTGAGCCCCTCCTCTCCTCGTCCGGCCTGCAGCCCAGAACGGGCCTCCCCGGGGGTCCCCGGACGCTGGCTCGGGACTGTCTTCAACCCTGCCCTGCACCTTGGGCACGGGAGAGCGCCACCCGCCCGCCCCCGCCCTCGCTCCGGGTGCGTGACCGGCCCGCCACCTTGTACAGAACCAGCACTCCCAGGGCCCGAGCGCGTGCCTTCCCCGTGCGGCCCGTGCGCAGCCGCGCTCTGCCCCTCCGTCCCCAGGGTGCAGGCGCGCACCGCCCAACCCCCACCTCCCGGTGTATGCAGTGGTGATGCCTAAAGGAATGTCACGCAGTTTTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000176884-GRIN1:NM_007327:19
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
Other Inclusion Isoforms:
NA
Associated events
Conservation
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
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)