RnoINT0067649 @ rn6
Intron Retention
Gene
ENSRNOG00000011726 | Grin1
Description
glutamate ionotropic receptor NMDA type subunit 1 [Source:RGD Symbol;Acc:2736]
Coordinates
chr3:2520791-2521159:-
Coord C1 exon
chr3:2521038-2521159
Coord A exon
chr3:2520966-2521037
Coord C2 exon
chr3:2520791-2520965
Length
72 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
AGCTGCAGGGTCCCCTACAGGCA
3' ss Score
1.82
Exon sequences
Seq C1 exon
CGAGGACGACGCTGCCACAGTGTACCGCGCAGCCGCAATGCTGAACATGACGGGCTCTGGGTACGTGTGGCTGGTCGGGGAACGCGAGATCTCTGGGAACGCCCTGCGCTACGCTCCTGATG
Seq A exon
GTGAGTGCTGGGCTGTGGGGTTGCCTGGGACTGTAGGCCTGTCCAGTCTCTAAGCTGCAGGGTCCCCTACAG
Seq C2 exon
GCATCATCGGACTTCAGCTCATCAATGGCAAGAATGAGTCAGCCCACATCAGTGACGCCGTGGGCGTGGTGGCACAGGCAGTTCACGAACTCCTAGAGAAGGAGAATATCACTGACCCACCGCGGGGTTGCGTGGGCAACACCAACATCTGGAAGACAGGACCATTGTTCAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000011726:ENSRNOT00000037725:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.068
Domain overlap (PFAM):
C1:
PF0109423=ANF_receptor=FE(12.0=100)
A:
NA
C2:
PF0109423=ANF_receptor=FE(17.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAACGCGAGATCTCTGGGAAC
R:
CGCGGTGGGTCAGTGATATTC
Band lengths:
167-239
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]