HsaINT0072506 @ hg19
Intron Retention
Gene
ENSG00000176884 | GRIN1
Description
glutamate receptor, ionotropic, N-methyl D-aspartate 1 [Source:HGNC Symbol;Acc:4584]
Coordinates
chr9:140040178-140042666:+
Coord C1 exon
chr9:140040178-140040354
Coord A exon
chr9:140040355-140042603
Coord C2 exon
chr9:140042604-140042666
Length
2249 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
CTGTGCACATTATTCATCAGAGT
3' ss Score
5.24
Exon sequences
Seq C1 exon
AGCATCCACCTGAGCTTCCTGCGCACCGTGCCGCCCTACTCCCACCAGTCCAGCGTGTGGTTTGAGATGATGCGTGTCTACAGCTGGAACCACATCATCCTGCTGGTCAGCGACGACCACGAGGGCCGGGCGGCTCAGAAACGCCTGGAGACGCTGCTGGAGGAGCGTGAGTCCAAG
Seq A exon
GTGAGGGTCGGCGCCGCGGGTGGGCGCCTGGCGGAGCCGAGGTGCAGGACGGGCCGCCTTGTGTCTGTGGCTCCGTGTGTGACACCCTCTTCTTTCCATCGTGCATGGTCAGCACCACCACGTCTGGCGAGCGCCCGCCCCAGCCTGTCCTCGGCTCATTTCACTCGCTTTTGCCATTAGTCGAAATCTCCTTCGTGTCAGTCCCTGCGGGGCGAGGGCCAGACCACCTGGAGCTCCGCAAACACCCCTGCCCCGCGCTGCCGAGCGCCCTCGTCCCCTCCTCCTGCCCATGCCCCTCGCTCCCTGGAGGCCCCAGCCGGGCTTGGGACTCGTCACCCTTCCCGCCCACCCTGTCCTGAGTCCCCAGCAGCCTCCCTCTGGGCAAGGTCTCCCCTGTACACGACCCCCACATACCGCCCCTGCAGGCCTGTCCCCTCCTGGCTGGGCCCATTCCCTGTCCTCCCCCGCGTGGCCTCCCCTGAAGCTCTGCACCTCATGGCTCAGCAAAGCCCTGTCCACAGACACCTGCCCCCCAGCCTGGACCGCCCCTGTGGGCTCCACTCCCCTCCTTGCCCCCACCACAGGGCTCCCTCTGCACTCCTCACCAAGACCCATTAGCCACCTGGTTCTAGGACACACTGACCCCCAACACAGCCAGGCGTCCACTCTGTGGGGCTGCAGAGAGATCAGAGCTGGGATTTGGGGGGGTCCGAGCGACCCCTTTCCCCTTCCTTACCACTCCCATTTGCAGTCTGGGGCAGAGCTGGTTCTCGGCTACAGACCCCCGGAGCCCTGGGTGCTCAGCACCTGGGCCAGCTCCTGATCAAGCAGTGGGAGGAGGCCCAGGCTGAGGAGGGCCAGACCTATGGGTGGCTGGGAGCATGTTTCGTGTCAGAGCTGGCTTCATCGGACTTAGGGCCAACCTAGCACCCCCCAAGGCACCCCAGGCCCCGGGAGGGACCAGAGGGCATGGGTCGGGGGTAAAGCCAGGGGCAGACCAGAGGGTCCTGGGAGTACTGTCGTGGGGGGTCTGCTGAGTCTTGGGGGGGAGGGGCATGGGCACCAAGGGCCCCACCCAAGACAGTGCCCCTCACCCCAGTGCCCGACAGGCCCCTCCCCCCAGCGCCCGACAGGCCCCTCCCCCCCAGCACCCGACAGGCCCCTCACCCCAGCGCTCGACAGGCCCCTCACCTTCTGGCATGTCCACCCACGGCCACGGACTCCCATCACACACTCACCCCTGCGCACCCAACTGCCTGCTTTCACTCACAGGTGCATGCACACATTCCCATCACACTCCACACCTCTGGCCACAGGCTCAGGCTTGCCTCCATGCAGCTCCAGCGCCACACACACACCTGGACACGTACTCAGGTGCGCTCCTCACACACACACCTGGACACGCACAGGTGCGCTCCTCACACACACACCTGGACACACGCTCAGGTGCGCTCCTCATGTGCATGCTCACCCTTACTTGCGCCAGCCAGCACAGACACACATGCACACACGCACACACGTGCACAGGCACACACATGCACACATGCACACGCACACACATGCACACACGCACACACAAGCACGCACACACGCACATGCACACATGCACACACACAAGCATGCTCAGACCATCTGGCCCTTCCCCAACCTTCACAGGCCTTTGTGGACTAACCCTCCCATGCTGACACCCACAGGCGCATGCCACCCCTGCAGGCGCACATAACGCACACACACCCTCTTGGGCGCATATGCGAGCCGAAGGGCGTGGGCACCCCAGTTAGTGAGGATACCTCGGTCTCTTGAGAGGCAGAGGGAGACCAAGGAGAGGGAGGGGGAGGGACATGGGGACAGGCCCCGGGGGGGCTGCTCACCTCCCACTCAGGACTGACACAGGTTGGAGTGGGCACTGCTGGGGCCACACAGCAGGTGCACGGCAGGGTGGGGGCGGCAGGTGGGGCTCCCTCCGAACGGTGGACGCGGACAGGGCCTCCTTTTCTCCCGAGAGCGACCGTTTCCAAGAGCACAGCTTCGTGGCAGGGAGCCTCCACGGCCCCGCCCCTACGACCCTCACCCCCAGCTCCACCCCGGCCCCCAGCCCCGCCCCGGGCCTCGGTGTTTGCGAGCTCCAGGTAGGAGCCCGTCTGCAGACGTGCCGAGGAGGTGGTGTGATTGCTTTAGCGCCGTCATTTTCAACCGTTTATAATCTTCTTCTGTGTCTGCATATTTTCTCTGTGCACATTATTCATCAG
Seq C2 exon
AGTAAAAAAAGGAACTATGAAAACCTCGACCAACTGTCCTATGACAACAAGCGCGGACCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000176884-GRIN1:NM_001185091:3
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.139 A=NA C2=0.429
Domain overlap (PFAM):
C1:
PF0109423=ANF_receptor=FE(18.1=100)
A:
NA
C2:
PF0109423=ANF_receptor=FE(5.9=100)
Main Inclusion Isoform:
NA
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]
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)