MmuINT1020101 @ mm10
Intron Retention
Gene
ENSMUSG00000085830 | Grin1os
Description
glutamate receptor, ionotropic, NMDA1 (zeta 1), opposite strand [Source:MGI Symbol;Acc:MGI:2443867]
Coordinates
chr2:25293657-25296041:+
Coord C1 exon
chr2:25293657-25293911
Coord A exon
chr2:25293912-25295873
Coord C2 exon
chr2:25295874-25296041
Length
1962 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
CATCCTTGTGTCGCTTGTAGGCG
3' ss Score
9.96
Exon sequences
Seq C1 exon
GTGCTCAGGCCCCAGGCCTTTCAAGAACACCCTATCCATGCTCAGATCACCTGGGTGCTGCTGCCACACCTCCATCAGGGACCTGTTCACCATGGCAACACCCCACTCCCCACCTGACAGTCTCCCTGTAACCAAGGGTCAATGCCAATGCTAGGCCCCAGTCGTCCACCCAGATGGACCCAGGCCCGGCCCCCAGCCCCCGGCCCACACAGAGACCACATGGAAGATGCAACACGCATGGCTCTGGTGAGACAG
Seq A exon
GTGAGACAGGTGTCTGGGGGGCGGGGCCAGTGGCCAGACAGACGGACGGATGGGACATCACAGCTACACCCTGCAGGGCTGTTGCAGGGCAAGAATGAAAGCATCAAGCCCCGTGTGGAGAAACAGGGATGAAACAGACGTGGTGTGGCCTCCTGGCAGGGGCAGCCTGGGACAGGGCTACTCTGGTTCCCAGGGTCCGGGTAGCCCAGAGAGGCAGTGAGGCTGACTGACTGACCAACAACATGACACAGCTTCCAGATGGCGTGTGGGTCATGGCATGGGGAGAGAGGTGGGCAGACTAACGTGGAGACACATGGGGAAGCTGAGGGCAAGTGAGGGCTTGAGGAGAGGTCTGGAGCGTTCTAAAGGACAGCACCCTTTAATGGGTGGAGGGTGGGTGAAGGACTGACTTGGCACAGATGGCCAGGGTTGAAGATGGGGGCAGGGGTGGGATGGTAAGGGAGAGGGAGACAGACATGGGGCAAGGGGGGAGTCAGAGACGCGGGACTGGGGTGCTTCCCCTTACCGTGTCTTTGGAGGACCTACGTCTCTTGAAGCTGGAGGCCAGGGTGGAGGTGATAGCCCTAAATGTGGCTTTCTTTTTAGGGTCGGGCTCTGCTCTACCACTCTTTCTATCCTAAAATGAATATGTATAAGCGATTAGACAACTAAGGGTGGCGGCCACACCTGCCCTTGCCTGCTCCTTGGGGCCGCTGCCAGGCCTGGCAGGTCACTCAGGCCCTGACTCCTGCCTGCCTCACTGTGCTGAAAAGACGGACCAACAGCCAGACTTTCAAGAGTGGCCTCTTCTGCCCGGGGTTGGGCCTGTCCTTGCTTGTGCTGGGTCTGGGCTTGGGGGGTCCTGACGGCACTCTTCCTGGGATGTCCGCCTGGCTCCCTGGCTCCTGGGTGGCCCTGGCTTAGAGGCATCCTGAGGAGGAGGAGCCTCTGAGGACAGGAAGAGCTTCCCCTCAGGCCACACCAGCCTTTCTGTTCAGAGGCTGCTGACCCCAAAGGGCACACACCAGGAAAGGGCCAAGGACCCGAGGAAATGTCCTGTTGGAGTTGGAGTGATAGACAGAGGCAGATCCGGGGACGCTGGCCTGGAGTCTGATGGCCAGCATGGCCCTGGACAGTTGTGGCCAGGTCCCCAGGGGACCTGTAGGGCCAAAAGCAAGAATGGGTGGATGAGAGGTATGGGGGCTCCAATAGCCCCGTCCGCCCATAGCCCTCATTGCAATGTTAATGCCAGCTCAGGACACAGCTCCAGGAAGACACCCAGAGAAAGAGAAGAGACAAGTGAATCGGATCCTGACCATTGGCCACTAGTCTTCAGGCCTGTGTGAGCCTCACTGCCCACCCTGTCCCTTTCCCTGGTGGGCTCTGACATGCAGCCTCATCCCCACTAACCACAAATCCACACGGATGTGGCCTGAGGCAGATCAGCTGCATTTAGATTTGGAATCACAAAGCAAGACACAGCATGAAAAGGGGTCCCCAGATGGTGTCAGAGGTGCTTGGATGATAGAAGGATAATGCATCTCAGGTTCACACAGGAGGGCCCTTGTCTTACCCTGCCTGCTTGCCTTCCTATGGATTGGGTGCCAGTAGCTGACCTTGGAGACAGAGGGGCCGGGCAGAGGCTTGAAGCAGGGTGCATGGCTTCCCTTGGCCCAGCTTGGCAGTGGGTGGCCACCTGCAGGCAGCCCCTGCCTGTGCTGCCCCTGTGCCTTGGGAACACTCACCACTGCCCCTGGCCATGGCTCCTAGCACCAGTCCTGCCCATGAGCCAGAGCCAGTGCCACGGCCTGTAGGGATAGAGTAGGGCCGTGGCCTGGCGGGGCCCTGGACGCCAGGCCTCGGAGGGTGGCCTGTCCTACCTGCAGGTTCTTCCTCCACACGTTCACGGCTGCAAAAGCCAGCTGCATCTGCTTCCTACGGGCATCCTTGTGTCGCTTGTAG
Seq C2 exon
GCGATCTCGATGAAAATGAGGAAGATCCCAGCTACGATGCCTCCAGCCACCAGCATGAAGACCCCTGTGTGAAGGGACCCTCAGCAGCCTGCCCAGAGGCTAGAGCCCCAAGAGAATCCATCCCAGGATCACGGCAGCATGGAAGGCGCACCTGCCATGTTCTCAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000085830:ENSMUST00000129723:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
NonCoding
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATGCTCAGATCACCTGGGTG
R:
GGGATGGATTCTCTTGGGGCT
Band lengths:
343-2305
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types