HsaINT0072520 @ hg19
Intron Retention
Gene
ENSG00000176884 | GRIN1
Description
glutamate receptor, ionotropic, N-methyl D-aspartate 1 [Source:HGNC Symbol;Acc:4584]
Coordinates
chr9:140040178-140043561:+
Coord C1 exon
chr9:140040178-140040354
Coord A exon
chr9:140040355-140043460
Coord C2 exon
chr9:140043461-140043561
Length
3106 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
CACTCTTGCTCACACCGCAGGCA
3' ss Score
7.06
Exon sequences
Seq C1 exon
AGCATCCACCTGAGCTTCCTGCGCACCGTGCCGCCCTACTCCCACCAGTCCAGCGTGTGGTTTGAGATGATGCGTGTCTACAGCTGGAACCACATCATCCTGCTGGTCAGCGACGACCACGAGGGCCGGGCGGCTCAGAAACGCCTGGAGACGCTGCTGGAGGAGCGTGAGTCCAAG
Seq A exon
GTGAGGGTCGGCGCCGCGGGTGGGCGCCTGGCGGAGCCGAGGTGCAGGACGGGCCGCCTTGTGTCTGTGGCTCCGTGTGTGACACCCTCTTCTTTCCATCGTGCATGGTCAGCACCACCACGTCTGGCGAGCGCCCGCCCCAGCCTGTCCTCGGCTCATTTCACTCGCTTTTGCCATTAGTCGAAATCTCCTTCGTGTCAGTCCCTGCGGGGCGAGGGCCAGACCACCTGGAGCTCCGCAAACACCCCTGCCCCGCGCTGCCGAGCGCCCTCGTCCCCTCCTCCTGCCCATGCCCCTCGCTCCCTGGAGGCCCCAGCCGGGCTTGGGACTCGTCACCCTTCCCGCCCACCCTGTCCTGAGTCCCCAGCAGCCTCCCTCTGGGCAAGGTCTCCCCTGTACACGACCCCCACATACCGCCCCTGCAGGCCTGTCCCCTCCTGGCTGGGCCCATTCCCTGTCCTCCCCCGCGTGGCCTCCCCTGAAGCTCTGCACCTCATGGCTCAGCAAAGCCCTGTCCACAGACACCTGCCCCCCAGCCTGGACCGCCCCTGTGGGCTCCACTCCCCTCCTTGCCCCCACCACAGGGCTCCCTCTGCACTCCTCACCAAGACCCATTAGCCACCTGGTTCTAGGACACACTGACCCCCAACACAGCCAGGCGTCCACTCTGTGGGGCTGCAGAGAGATCAGAGCTGGGATTTGGGGGGGTCCGAGCGACCCCTTTCCCCTTCCTTACCACTCCCATTTGCAGTCTGGGGCAGAGCTGGTTCTCGGCTACAGACCCCCGGAGCCCTGGGTGCTCAGCACCTGGGCCAGCTCCTGATCAAGCAGTGGGAGGAGGCCCAGGCTGAGGAGGGCCAGACCTATGGGTGGCTGGGAGCATGTTTCGTGTCAGAGCTGGCTTCATCGGACTTAGGGCCAACCTAGCACCCCCCAAGGCACCCCAGGCCCCGGGAGGGACCAGAGGGCATGGGTCGGGGGTAAAGCCAGGGGCAGACCAGAGGGTCCTGGGAGTACTGTCGTGGGGGGTCTGCTGAGTCTTGGGGGGGAGGGGCATGGGCACCAAGGGCCCCACCCAAGACAGTGCCCCTCACCCCAGTGCCCGACAGGCCCCTCCCCCCAGCGCCCGACAGGCCCCTCCCCCCCAGCACCCGACAGGCCCCTCACCCCAGCGCTCGACAGGCCCCTCACCTTCTGGCATGTCCACCCACGGCCACGGACTCCCATCACACACTCACCCCTGCGCACCCAACTGCCTGCTTTCACTCACAGGTGCATGCACACATTCCCATCACACTCCACACCTCTGGCCACAGGCTCAGGCTTGCCTCCATGCAGCTCCAGCGCCACACACACACCTGGACACGTACTCAGGTGCGCTCCTCACACACACACCTGGACACGCACAGGTGCGCTCCTCACACACACACCTGGACACACGCTCAGGTGCGCTCCTCATGTGCATGCTCACCCTTACTTGCGCCAGCCAGCACAGACACACATGCACACACGCACACACGTGCACAGGCACACACATGCACACATGCACACGCACACACATGCACACACGCACACACAAGCACGCACACACGCACATGCACACATGCACACACACAAGCATGCTCAGACCATCTGGCCCTTCCCCAACCTTCACAGGCCTTTGTGGACTAACCCTCCCATGCTGACACCCACAGGCGCATGCCACCCCTGCAGGCGCACATAACGCACACACACCCTCTTGGGCGCATATGCGAGCCGAAGGGCGTGGGCACCCCAGTTAGTGAGGATACCTCGGTCTCTTGAGAGGCAGAGGGAGACCAAGGAGAGGGAGGGGGAGGGACATGGGGACAGGCCCCGGGGGGGCTGCTCACCTCCCACTCAGGACTGACACAGGTTGGAGTGGGCACTGCTGGGGCCACACAGCAGGTGCACGGCAGGGTGGGGGCGGCAGGTGGGGCTCCCTCCGAACGGTGGACGCGGACAGGGCCTCCTTTTCTCCCGAGAGCGACCGTTTCCAAGAGCACAGCTTCGTGGCAGGGAGCCTCCACGGCCCCGCCCCTACGACCCTCACCCCCAGCTCCACCCCGGCCCCCAGCCCCGCCCCGGGCCTCGGTGTTTGCGAGCTCCAGGTAGGAGCCCGTCTGCAGACGTGCCGAGGAGGTGGTGTGATTGCTTTAGCGCCGTCATTTTCAACCGTTTATAATCTTCTTCTGTGTCTGCATATTTTCTCTGTGCACATTATTCATCAGAGTAAAAAAAGGAACTATGAAAACCTCGACCAACTGTCCTATGACAACAAGCGCGGACCCAAGGTATATATGCATGGACGTGCACGCCACCCACGGCTAGGGAGCCCTGGCCTCGGCGCCTCGGCCACTAGGGCCACTGTCTGGCCCAGCCGCCGAGCCGCAGGCCCAAGCAATGAGGAGAGGCAGCCGGCAGCAGGCAGGAGAGGGCAGGCAGGAGAGGGCAGGCGTGGCGGCGTGGGTGCCTGAGGCCCACCCGCCGTGACCCTAGCCTGCACCCTCGAGGCAGGCGCGGCTGCAGGAGGAGCTGCTCTCCGGGAAGTGCATGCGAATCTCCGAGACCCCAAGGGTTTCCTCGTGGAACCCGGGAGGGAGCCCGCCCGCCTGGCCACCCACTCGCCGGGGCCGGGCTGCTCCTCAGGGGCCTGCGGAATCAAACCTCAGAGGACCTCCCATGGTTTTGGAAAAGTCAGCCCCATCTCTTTTCCTGGTTGCATTCCAAAACTCTTTTCTGTTTCCCGTCCGCTGCACGCCTCCTGAGTCTGGGTCCACTTCAGCTTGCATGCTCAGTGCAAAGATGAGGACAGGAGTGAGGTGGAGAGAGAGATCCAGAGAGAGCAGAGAGAGCACAGAACGAGCACAGGTGAGCGCGCAGGCTGAAGACAGGACAGGACCGGAGAGGCGAGGCCAGGCCAGGCAAGGACTGAGGAAGGCAGGCGGAGGCGCAGGTGGCAGGCGCAGACCATGGCAGCCCTAGCTAAGCTGCCTCGGGGTTCCCAGCGGCTCCGGCCCAACTCTCACCCCTGAGGCGCTATGTCCCCTGCCCCAGCCGCCTGCTAACACTCTTGCTCACACCGCAG
Seq C2 exon
GCAGAGAAGGTGCTGCAGTTTGACCCAGGGACCAAGAACGTGACGGCCCTGCTGATGGAGGCGAAAGAGCTGGAGGCCCGGGTCATCATCCTTTCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000176884-GRIN1:NM_007327:3
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.139 A=NA C2=0.085
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
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
- 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)