RnoINT0067652 @ rn6
Intron Retention
Gene
ENSRNOG00000011726 | Grin1
Description
glutamate ionotropic receptor NMDA type subunit 1 [Source:RGD Symbol;Acc:2736]
Coordinates
chr3:2514886-2519364:-
Coord C1 exon
chr3:2519281-2519364
Coord A exon
chr3:2515028-2519280
Coord C2 exon
chr3:2514886-2515027
Length
4253 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGG
5' ss Score
5.87
3' ss Seq
GTTCTTATCTTTCCGTGCAGATA
3' ss Score
9.91
Exon sequences
Seq C1 exon
GTCATCCCAAATGACAGGAAGATCATCTGGCCAGGAGGAGAGACAGAGAAACCTCGAGGATACCAGATGTCCACCAGACTAAAG
Seq A exon
GTGGGGGACCCCGCTGATGTACCCCAACATCCCCATCTATTCCTTAGGCCAGGAGGAGAGGGGATGAAGTCCTAGAGCACAGATAGAGGAGGTGCGGTCGTGCCAACACCTGGCTCTGGCAGCCATGGCAGAGGAAGCAGGAGTGGAGGTGGGGAAAAGAGGAGCAGCAGTTTCTGCCCCACAGGGTCTTTGCAGGACTCCATCCTGGACCAGCTCTAGTCAGTCCAAGGAGAGCAGGGAGGCAGAGGGACAGTGAGTGTGTGCTCTGGGCCCCAGTGCAGAGCTTAGCTTAGAACTTACTGTCTAAGTGTCCCGTTTCTCCTTGGGTATCCAGGGAACCCCTTCTTGAGCTGGCTTCCTCCTCTATAGCCTCTCCTCAGCCTGATTTGCACTTTCCTTGGGTTCATCCATGGCCCCCTCCCTCTGCCTAAGGGCTATTCTCTGAGTTCCTCTTCACCGTGAGCCACAGCACTCCCGGCTCTGATACTGTAGATCACTGAAGGCGGGCTCTGCACTGCCATGTGCCTAGCCAACCTTCTCTTAGTGTTTTCATCAAATATCTCAACTCTGCTAACTCTGAGCTCACCCCTGCAGCGGGGCCACTGTCTCACTCTGCGGTGAGTACCTGCCTGCATCTCTTATAGGAGAGCGAGTGTCACCTGGTGAAGCCCATGTGGTATCTGTTTGCAGTTCAGGCACCTGATGTTGAGAAGTCTGAGAGTGCTGGGTGGTGTGGCACGTCCTTTAATCCCAGAGGCAGAGACAGATCTCTGTGAGTTCAGGGCCAGCTTGGTCTACACAGCTAATTGCAGGACAGCCTGGGCTACACCAAGAGACCCTGTCTTGATAAACCAAGGGGCAAGGGGGGCTGAAGGCCGTAGCCAAGTACCAATAACCAGAAGGACCCATCCAGGTGCCAGTGGCTGTCAGGATGTCCCGCCTCACTGGTCGGTTCAGTTTTATTCACATGTAAGAATGTTTTACCTGCTCCTATATGTGGGTGCCATGTGCTTTCCTGGTGCCCAGACTTCAGGATAGTGGATTGCCTGTAACTGGATGGTTGTAAGCCACCATGCAGGTGGTGCGAACAGAAACTGGGTCTTCTGTAAGATCTTCAGGTGCTCATAACAGTCTAACCCCCTCACTAATTTTTCGACAGCACTAGCAAATATACTTATGTAATAGAATATATGAATATGGTCATGCCTCCTTCCCTTGACTTTTCCTTCTCAAGACTCCCAGTGACAGGTTCCTCCTCCACGGCCTGTCACCACACCTTGCCTTGCTGTCCACTCCTGCCTGGGCTCCCCTCTGTTCTTTGCATCTGATGCAGACCCTTGGCAACTGACTGCATTCCACTCTGACATCACCCAGATGTCTACCTGTCCCCGAACTATAAGACTGTGGACCCTAAAGAACAGGGAGTGAGAATGTCAAGGCTGAAGTCTAGGCTGCAGAGGTGCCCTTGAAAGAGAAACATTAACTAGGCATGTTGGAGCATGCCTTTAAACCCAACACTTTGGAGGTAGACAAAAAAGAATCAGACATTCAAGGTCTTCTTCAGTTACCTAGCAAGTTGTGGCCAGCCTTGACCCTGTGAGGCTTTCTTTTTTGTGGGGGAATGTGGAGAAAAAGAGTTCATTTGGCTTAGACCTCCATATTGTGTTCCATTATTGAAGCAAGTCATGACAGGAACTTAAACTGGGCAGGAACCTGGAAATAGGAGCTGATGCAGAGGCCCTGGAGGGAGGGGTGCTGCTTACTGGCTTGCTCCTTGTGGCTTGCTTTGCCTGCTTTATTGTAGAACCCAGGACCACCAGCCCAGGGTGGCTCTACCCATTATGGACTGGGCTCTCTCTCATTCAATGGCTGATTAAGAAAATGCTTTACAGGCTGGCCTACAGCCTAATCTTATGGAGAGATTTTTTTCTATTTTTAAAAATTAATTAATCATGTATTACATCCCAACTGTACTTTCCTTTTTGTCTATGAGGCCCTGTCTTAAAAAAGAATTGAAAGAAAAGAAAAGCATGCCCGGCAGTGGTGACACACCCATTTAATTCTGGTACTCAGGAGGCAGAGGCAGACAAATCTCTGTGAGTTCAAGGCCAGCCTGGTCTACAGAGCAAGTTTCAGGACAGTCAGGGCTACACAGAGAAACCTTGTCTTGAAAAAACAAAAAACAACAAACAGGGGCAGGAGAGATGGCTCAGTGGTTAAGAGCACTGGCTGCTCTTCCGAAGGTCCTGAGTTCAAGTCCCAGCAACTACATGGTGGCTCACAACCATCTGTAATGGGATCCAATGTCCTCTGCTGGTGTGTCTGAAGACAGGGACAGTGTACTCACATACATAAAATAAATAATTCTCTAAAAAAAAAAAACCCAAAACAAACAATTCTGAGATGGTAGGACACACCTTTAATCCATGTATTCAGGAGGCAGAGTTGGGTGGATTTCTGTGAGTTCAAGGCCAGCATATTCTACACAGCAAGTTCCACATCAGCCAAAGTTATATAGCCAGAGCTACAAGATGCTGACTCAAAAAAAAAAAAAAAAAAAAAAAAAACAAACGTATGCAAGTGCAAGGCCCTGGGTTTGGTCCCCAGCTCCGAAAAAAAATATGGGGACTGGTAAATAGCCCAGTGAATCACATGAGTTTGGATCCCAACACACACGTCAAAATCTGGACATGGCTGCACACTGTACTCGGCATAACCCTGTCCTTGGTGGGAGGAGTGGCCAGAGACAGGTTGGTCACCAAAGCTCACTGACTAACCAACCTAGCCAATTACTGTGCTCCAAGCTTAGAAGAAGACTTGTCAATAATAATAACAATAAGAATTAAAAAAACAAGGGGCTGGGGATTTAGCTCAGTGGTAGAGCGCTTCCTAGCAAGCGCAAGGCCCTGGGTTCAGTCCCCAGCTCTGAAAAAAAGAAAAAAGAAAAAAAAAAAACAAAAAACAACAACAACAACAAAAAAACAAAAAACAGTGGGACTGGAAACATTGTTCAGTGGTTTAGAGCACTGGCTGTTCTCCCATAAAACCTGGGTTAAAGTCCCAGTACCTACCCAGCAGCTCACAGTCATCTGTATCTGTAGATCCAGGGTATCTAATGTTCTTTCTGGCCTCTGTGGGCACTGTATGCACCTGGAGTACAGACGCCCATGCTGGCAAAACACTATACACTGAAAATAGTAACAAATAAATCTTTAAGATAAAATAGGGGCTAGCACAATATCCTCTCAGAGGTTAAGAGTACTTTTTGCTCTTCCAAAGGACCTGGGCTCAATTCCCAGCACCCACATGATGTTCACAACCATCTGTGGCTTCAGTTCTAGGGAGTTTCATGCCTCCTGATTTCTGTGGGCTCCTGCATGTATGTGATACACACACATACACTCAGGCACACACACACATTCACACACACATACACACACACTCACACACATACTCAAACTCACAAACACACACTCACACACAAACACACACTCACACACATAAAATAAAGATAAATACGTAAATAATAAGAGTGGTGGAAAAAGGGGCTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGGAAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAGAAAAAAGAAAAAAAAAAAAAAAGAGTGGTGGAAGAAGACATGGGACATTAACCTCTGGCCTCCATGTGCATTTTCTCACATACATGAATACACGGAAACACATACATACATACATATAATCATGACTTAAGGGTAGTTTTTTAAAAGACAAGGATCAAAGACTGAAGGTGACATACCAGGGGAGGCCAGGGTGTCTTTGGAAAGGACACAGTCTTTCTGCTCCCTGCTTGGTCAGAGAGAGTACCTGGTTCACACTCACTGCCCAGCAGTGCTATGATGGAGTAATGTAGATTGCAGTCTGAGGGGAAGGGGCCATGGGGGAGGACACAGATTTGCAGGAGGCATTTTTGAGGAGTCAGGGCAGATGTCTGGGGATGTCTGTGCCCTGCTTCAGCACCCCACCCCCAGTCCCTAAGACCCGGATCTGTTCCCAAGGGCAGCAGGCAGGCAATGCCAACCATGTCAGAAGGATGTGGACTGGCTGACAATCAGGGGAGGCTTTAGGCTTGGGATTTGACACAGCCCTGGAAAAGCATGAAGAAAAGGGGTTGCCATGTACTGAGAAGCCGGCACCCAGAGACAACCAGGGCCAGGCGGTCCAGGCTAGTTCTTATCTTTCCGTGCAG
Seq C2 exon
ATAGTGACAATCCACCAAGAGCCCTTCGTGTACGTCAAGCCCACAATGAGTGATGGGACATGCAAAGAGGAGTTCACAGTCAATGGTGACCCAGTGAAGAAGGTGATCTGTACGGGGCCTAATGACACGTCCCCAGGCAGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000011726:ENSRNOT00000037725:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.321 A=NA C2=0.290
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
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]