MmuINT0138097 @ mm10
Intron Retention
Gene
ENSMUSG00000015846 | Rxra
Description
retinoid X receptor alpha [Source:MGI Symbol;Acc:MGI:98214]
Coordinates
chr2:27737299-27741203:+
Coord C1 exon
chr2:27737299-27737564
Coord A exon
chr2:27737565-27741052
Coord C2 exon
chr2:27741053-27741203
Length
3488 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
CCCCACTCCTCCTCTTGCAGCTC
3' ss Score
10.1
Exon sequences
Seq C1 exon
ACTTCTCTACCCAGGTGAACTCTTCGTCCCTCAACTCTCCAACGGGTCGAGGCTCCATGGCTGTCCCCTCGCTGCACCCCTCCTTGGGTCCGGGAATCGGCTCTCCACTGGGCTCGCCTGGGCAGCTGCACTCTCCTATCAGCACCCTGAGCTCCCCCATCAATGGCATGGGTCCGCCCTTCTCTGTCATCAGCTCCCCCATGGGCCCGCACTCCATGTCGGTACCCACCACACCCACATTGGGCTTCGGGACTGGTAGCCCCCAG
Seq A exon
GTAAGTGCTAGGATGAGGTTTAGTGACATGGGACAGAAAATGGGAGCTTCCCCTGTAGGCTGTAAACCAATGGTTCAGAACTGAGATTTCTACTGTTTCTTCATGAGAGTGGGCTACAGAGCAAAAGCTGGTCTCCGAGAGTAGTGGTAGGACTGAGCCTCACTCTGGCTGACCCACACTGGCTTCGAAAGCTCTGTCAGTTGAAATTTCTTGCAGCTGGTCTTCAGCTCAGCCTGGAGCCTGTCCCCAGGACTGTGGAACTCTGGGGTATATGCTTCCCCAGGCTTGGGGCCATCTTCCAGTGGTCCCTGAGGGCTCATAGGTTCCTCTTCCTGGGACACTGGCCTCAGTATACCCAGGCCTTCAGGGAAAGCACATCCTGGTCCTGGGAACCCACCCTTAGGTTCTACAGAGGCCCCTGGCGGCAGCCTCTGCATGGGCTCTGGCTCTCTGTGGCCCTGTGGATGGTGGCTATCTGCAAGACGTGACTTCCTTTTCTGTGGGCTTGGTAGAGCCCTCGTCTTGCTGTGGGCACTCTAGGGGTCTTGCTCAGCCTCTTCCTCCCAAGCCCTGAATGCTTGATGGATATCTTATAGAGCCTCACCCTGCTTCTATTTTCTTGAGGGTCTTGGTGAGTTTCTAACAGGATTTTGTCCTTGGCGTACACGAAACTCTGCATCTGGAAAACCAGCTCCTTGGGGTTCCTTTTACCTTTTCTGAAACAGGTCAGGGATCCCCTTTCTGCTCTGAGCTTCTCGGGTTGGGTTCTGTTTTCCACCCCCAGTAGCTTTGCTGTGCCACCTCCCTGTGGCATACCTGGAACCATCCTCACTAGAACCAGAGGGCCAACAGCACCTTTGTGTCCCTTGATTTCCAAAGCCTTGTGCCCTGAGCCATGACATCCGTGCCCCCCTTCCTGGTGCCGGGGGTGTGTAGAGAGACCACTTACACCTCACCAGGTAGCCTCTTGAGACTGGTCTGAGCCTCTTAAGCTTCTCCTCCAGACAATCTGGCTGCTTTTTCTAGGTCGATTCCATATAAGCCCCTTTGCCCTAGTGTGTGTGTGTGTGTGTGTATGTGTGTGTGTGTTTGCAAGCTAACCCAAGCATCTGAACACATAGAAGGGCTAGGGTGTTATTTATGAGCAATCTGTTACACTGTCCCCTGCTCCCCACCTTGCTTTTCAGAAGCAGACAGAAGGCCTGAGGTGCTGCTGGCATGACTGCCTGTGTGCAGGCATGAAGCAGGCCTGATCATGCAGCCACCTCCCCTGGCATGGCCATGCTCTTTTTTATCATAGCTTCTCTGTACCCTTGCTAGCTCTGGAAGCCATGAGTAGTGAGGGTAAATGAAGAGCTGATCTCCATAGTTCCCTGGCTTCAGTGTTGACCCCTCTTGGCTCTCGGCTCCATGAGGTTCCTTGCTATGTCAGGCCACAGCCACCCGGTGCCCAAGCCATTGATGTGGCTCATGTGTTTTGGGGGCTCTACTAAGACAGGGCCCAGTGGGATGCTCCCCACTACTTCCCAGACCCCACTGTCTGTCTGTCCATGCTGGCTTCCCTGGGTAATTTACAACTGGGAAGCATTTCTGACTGCCCAGATGTAGAGAGCAAGGCATCAAGGCCTCTGATTGTCCTGATTTACGGGGAGGATCTCGCACTGTGGGAACTGCAGTGACTTTGTAAGCGTGTGTTTCATGATGGCTATAGCCAGGCAGATGGGGAACGGGGCTGTGGGGAGCGTGCAGTGCATGAGAGCAGGTCTGCTCTGGATAGCTCATCTGAGTGGGCTTGGGAGGACAGGGTGAGGTAGGAGTGGAAGACAGGGTGCCTGAGAGATAGGTGGGGACCCAGGTGCAGTAGTGATGGGGTGGAACTGAAATAAATGCTAAGGATATGAAAGGGGAAATGGGATGGCCCCCACCCAGGGAGTCTTCGGGCTCCAGCGAGGGCTGCCCAGTCCTGGGTCTCCTGAAAGATGGGTCAGAAGTACCCAGGACGATGGGGCTGTGGTTCGTGGGGGATGCTGAGGAAGGAAAGAATAGAAACTGTCCTGGTCCGTCAGCTCAAATCTGGGAAGGGCAAAGAAATCGTCTTCCAAGTCACGGGTTCCCACGTTGCCTACTGTGGAGCTCTCGGGGCCAGGGTGGGGGTGGGGGCCGGCTCGGTGCTACAGATCAACCTCTGCTCTGCCCTGACATCAGGTTTCACGGGCCCCAAGCTGTTTATTCTGCCCAGAGCCAAGACCTCCAGAAACCTGCAGGGTTAGGCTTCCCATACAGTGAGTGGAGTGGAGGGATGTACAGTCTTGCCAGCAAAAGCCGGCTGTCTCCCTGCCGCCCGTCTCCCTGCCGCCCCAGGATTCCTACATAGGGCCTTCAGCCAGTGAACACCACAGGGACTGCTGCTCTCTTCTGCAGTGAGATGGCCTGCCTGCCGCTAAGACCTTCCACGTCCTGACAACCCCCTCTGACACACTCAGAGTTGGTTCTCTGTGTGGATCTCCAGGCTCCCCAGCAGCCCCCCTAAAGCTAACCGGGATGAGGTATCCTTGCTGAACCTCACAGTCTGTGTCACAGTGCCGGCCAGCTAGGGCTGCAGAATCTGCTCTTTTCCTGCCCCGTGAGAAAGGGGTGGGGGATGGGGCAGGAGGCCCTGAGGAAGGCGGGGAGGTTCCCCTTGCAGGGGGGCAGCAGGGGCTATACAAGGCCAGTGCGGACTGTACAGCTGGCTTTCTGCCGTTGTCAGGGGTTTTCAGAAGTGGGGGGACTACCCAGCCGGGCTCTGACGCCCTGGCAGATAGGCAGGCTGAGGGAAGCGCCTCTGGGCCCTGTGCTTACTGCAGAGCTAGGCTGGAGGCTGCGGAACCAAAACTGCTGTGTCATTGCGACGCTGCAGCTGTTGCCTGGGTGACAGGGTGAGTTTCCCACGCTTGCCCCTGGCGGCCAGCGGGCAGGGAGAGGCGAGGGGTGTGCTGAGGCCAAGATAGCCACATGGGCCCTATGGCTTGATGTCTGGGGTGTCCACTTGCTTTCCTCTCCTGTTCTGCCCCCAGATACCACTGTCATGCAGGGTGGTGGGGATATGTGTGACTCTGGAGGAGTCCAGCCTGATTGCAGCCCTGAACCTGGGCCTCTTGTCCTCACCCGGGTGGTGGGGGAGTGCCGAGTGCCCGGGCTCTCATGTGTCCAGGGCCCATGGCACATTGTTAAATGGCAGCTGTAGCTCCTTGGTGGGTGGTGGGGAGTAAGTGAGCCTCTTGTATGGTGCCGAGAGTGCTGGGATCACTGAGATGTAAGGACTTTGGTACCCTGCAGTGGCCTGGCTCTCATGAGGGGGTACTCTGAGGATGGTCCTGTTAGCTTGTAGCTGTTCTGGCCTGAGTGAGGCTCTGTAGAGGGGAGTTTTTCCTTGTAGGAGACCCCGCTCTCATTAGTGCCCATCCCCAGCCTGCCAGGGCTAACCTACCCCACTCCTCCTCTTGCAG
Seq C2 exon
CTCAATTCACCCATGAACCCTGTGAGCAGCACTGAGGATATCAAGCCGCCACTAGGCCTCAATGGCGTCCTCAAGGTTCCTGCCCATCCCTCAGGAAATATGGCCTCCTTCACCAAGCACATCTGTGCTATCTGTGGGGACCGCTCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015846:ENSMUST00000077257:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.888 A=NA C2=0.482
Domain overlap (PFAM):
C1:
PF118253=Nuc_recep-AF1=PU(69.8=91.0)
A:
NA
C2:
PF118253=Nuc_recep-AF1=PD(28.4=64.7),PF0010513=zf-C4=PU(15.7=21.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
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]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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