RnoINT0067634 @ rn6
Intron Retention
Gene
ENSRNOG00000011726 | Grin1
Description
glutamate ionotropic receptor NMDA type subunit 1 [Source:RGD Symbol;Acc:2736]
Coordinates
chr3:2514676-2515027:-
Coord C1 exon
chr3:2514886-2515027
Coord A exon
chr3:2514804-2514885
Coord C2 exon
chr3:2514676-2514803
Length
82 bp
Sequences
Splice sites
5' ss Seq
GCCGTGAGT
5' ss Score
8.56
3' ss Seq
CCCTAACTGCCCACCCACAGCAC
3' ss Score
6.43
Exon sequences
Seq C1 exon
ATAGTGACAATCCACCAAGAGCCCTTCGTGTACGTCAAGCCCACAATGAGTGATGGGACATGCAAAGAGGAGTTCACAGTCAATGGTGACCCAGTGAAGAAGGTGATCTGTACGGGGCCTAATGACACGTCCCCAGGCAGCC
Seq A exon
GTGAGTGCTGGGCAGAGTGTGGCAGGGCAAAGGGTTCCAAGTCAGGCACCCACGGTTAACATCCCTAACTGCCCACCCACAG
Seq C2 exon
CACGCCACACAGTGCCCCAGTGCTGCTATGGCTTCTGCATAGACCTGCTCATCAAGCTGGCGCGGACCATGAATTTTACCTATGAGGTGCACCTGGTGGCAGATGGCAAGTTTGGCACACAGGAGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000011726:ENSRNOT00000037725:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.290 A=NA C2=0.023
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0049715=SBP_bac_3=PU(10.2=81.4)
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:
TGGTGACCCAGTGAAGAAGGT
R:
TGTGTGCCAAACTTGCCATCT
Band lengths:
180-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]