HsaINT0072525 @ hg19
Intron Retention
Gene
ENSG00000176884 | GRIN1
Description
glutamate receptor, ionotropic, N-methyl D-aspartate 1 [Source:HGNC Symbol;Acc:4584]
Coordinates
chr9:140053073-140055649:+
Coord C1 exon
chr9:140053073-140053156
Coord A exon
chr9:140053157-140055507
Coord C2 exon
chr9:140055508-140055649
Length
2351 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGG
5' ss Score
5.87
3' ss Seq
GGTCTCCCCTTCCCCCCCAGATT
3' ss Score
10.08
Exon sequences
Seq C1 exon
GTCATCCCTAATGACAGGAAGATCATCTGGCCAGGCGGAGAGACAGAGAAGCCTCGAGGGTACCAGATGTCCACCAGACTGAAG
Seq A exon
GTGGGGGCCCCACAGACCTCCCTCAGTGTCCCCACCCCAGACAGCCCATCCACCCCCTCTGGCCTGAAGGAGGAGGGTGCGGTGAGGTCAATGAAAGCCACTAAAGGAAGTGGGGGTGGGGCCTGCTTCCCCTGGACACCGTCCAGCACACCTGGCACAGCACAGGAAGCAGAGAGAACAGGAGGGAGGAGAGGAAGCTGCCCCCATCCCACAGGGGGTCTCCAGTGCCCCTCTTGACCCAGCCCTACTTAAGTCTGGGGCAGTTAGTTGTCTGACAGGACCCTGCTGGGGAAGAGCAGATGGGGGACAGCAGGCAGACCTCAGCTTCAGCACTCGCTGTCCCCAGTCCTGGTCCTCCACACCCCTCATCCCTCCTCCAGCCTGCATTGCTCTTGATGGGACCGGGTCAAACTGTCCTCTTCCACCGTGTGGGACAGCCCTTCCTGACTCCCCTGGGCCTCTGAGAGCCTCTGCCCTCGCCGGCTTCCTCCTCCAGAACATCTTTCCCTTGGCTCCCTACTCCAGGGTGCTCTCCTGGCCATTCCTCCCCGGGCAGAGCCACACTACCCCCACTCCACACACACTCCAGTCCTGGTAGCATCACAGACCACCAAAGGCAAGGACCTCACAGGCGACACGCCCACCAACCTTCTCTCGGTCATTCCAAGCCCTCAAATGTCTCTTGACCCTGTCTGTTTTCTGAGCCCACCCCTGAAGCTTGGTGTCAGCCCCTGTGACCTCTCACCCAGGCTCCCTCCCCTGCTCTGCACCGGCCCCTGTGGCCTCTCACCCAAGCTCCCTTCCCTGCTCTGCAGACAGGGTGGGGTTTTCCAGTGCCAGTGTGGGTTTCATTGCAGCCCAGACACCTCACACTGAAAAGTCTGAAAGCAGCGGTCAAACGCTAATGGCCAAAAGGCCCCATCTAGGCTGTGAGATGGAGATGGCTTTTTACAAATTTGTTTCTGGCCTCACTAATTTTTTAAAAATACTAGCATATATATTACCTGTATAACAGGAAAATGTAATGAAAGTTTTATAAAGCAAATCAACTTCTTCAATGGCTCCTGATTCCCCTGGGGATAAAAGACAAAATGCTGCCTGGAGGCTGAGGGTGGGCGGGCCTGCCCCCCTCTCAGGCTCACCCTGCCTAGGACATGCCGGGAGGGTGCCTCTCCCACCACCCCCACGCCTCCCTGCCTTTGCAGTTCTGGACTGCAGACTCCTCTGCTCCACCTGCCCTCAGGCACCTGCTTGATCCCTGCCCACCTTGAGGGCTCAGCTCTGACACCATCTCCCCTCACAGTTCTGGCAGTGTGCTATGCTCTATTCCAGCCCCCTGTGCCCCAGATCCCTTCCCCACCCCCATGCCATGGTCCCTTGAAGGACAGACAGGAGGGCGAGCCCAAGCAGGAGTGTGGGTCGAAGAGGCCACGGCGCGGTGGAGCACGTACACACGGGCAAGAGAAAGGAGCCAGAGACCTACATTCAAAGCCTGAGGGCTTCGGGACTGGGGGCCGGGACAGGCAGTGCGCCGGGATGAAGGGAGGCACGGGTGGGTGGCCCCACGGGTCCCAGGTCCTGTGCAGGTGCAGGGTCGGCTTTGTGGACATGCCCCTGTCCTCGTGGCACAGCAGGGTGGGGGTCAGCCTGCAGGCTGGGCTGTTTCTCACCCCAGGAAGATGCCTGGCATACACGGGACATCAGCGGCTCCTCTGCTGGAGGGAATCATGTCTTTTTTTTTTTGAGACAGAGTCTCGCTCTGTCGCCCAGGCTGGAGTGCAGTGGCGCGGTCTCCGCTCACTGCAAGCTCCGCCTCCCGGGTTCACGCCATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGACTACAGGTGCCCACCACCACGCCCGGCTAATTTTTTTGTATTTTCAGTAGAGACGGGGTTTCACCGTGTTAGCCAGGATGGTCTCGATCTCCTGACCTCGTGATCCGGCCGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACAGCACCTGGCGGGGAATCATGTCTAAGCCAAGACTGGAGAAAAAGTGGCCAAGAGAAGGGTCCAGCTCTCCAGGAGTCTTTTCTGAGCCCCCAGCCCCCACCCCCCCGGGGCTGCAGGCAGACGATGCTGACGGTGGCTGGGGAGGACGTGTCCTGAACACTTGGGCTCGTGAAGAAGCTCCAGAGAGGGGCAGTGGCCGGCGGCGCAGGGCGGGGGGTGTGAGGGGTGCGTCGGGGATTAAGAGGGGCGCCAGGGGAGGCTGGGAGCTGAGAAGAGACTGCCGCCCTGGGCAGCCTTAGGTCGGTGGTCCAGGCTGGGTCTCCCCTTCCCCCCCAG
Seq C2 exon
ATTGTGACGATCCACCAGGAGCCCTTCGTGTACGTCAAGCCCACGCTGAGTGATGGGACATGCAAGGAGGAGTTCACAGTCAACGGCGACCCAGTCAAGAAGGTGATCTGCACCGGGCCCAACGACACGTCGCCGGGCAGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000176884-GRIN1:NM_007327:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.214 A=NA C2=0.250
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
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
- 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)