MmuINT0110551 @ mm10
Intron Retention
Gene
ENSMUSG00000028341 | Nr4a3
Description
nuclear receptor subfamily 4, group A, member 3 [Source:MGI Symbol;Acc:MGI:1352457]
Coordinates
chr4:48051246-48056059:+
Coord C1 exon
chr4:48051246-48052201
Coord A exon
chr4:48052202-48055929
Coord C2 exon
chr4:48055930-48056059
Length
3728 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
TCTGTGTTATATTTTCTCAGAGA
3' ss Score
8.2
Exon sequences
Seq C1 exon
ATATGCCCTGCGTGCAAGCCCAGTATAGCCCTTCACCTCCGGGGTCCACTTACGCCACGCAGACTTATGGCTCGGAATACACCACAGAAATCATGAACCCCGACTACACCAAGCTGACCATGGACCTCGGTAGCACGGGGATCATGGCCACCGCCACTACATCCCTGCCCAGCTTCAGTACCTTCATGGAGGGCTACCCCAGCAGCTGCGAACTCAAGCCCTCCTGCCTGTACCAAATGCCGCCTTCTGGGCCTCGGCCTTTGATCAAGATGGAAGAGGGTCGCGAGCATGGCTACCACCACCACCATCACCATCACCATCATCACCACCACCACCAGCAACAGCAGCCGTCCATTCCTCCTCCCTCCGGCCCCGAGGACGAGGTACTGCCCAGCACCTCCATGTACTTCAAGCAGTCTCCGCCTTCTACACCGACCACTCCAGGCTTCCCCCCGCAGGCGGGGGCGCTGTGGGACGACGAGCTGCCCTCTGCGCCTGGCTGCATCGCTCCGGGACCGCTGCTGGACCCGCAGATGAAGGCGGTACCCCCCATGGCCGCTGCTGCGCGCTTCCCGATCTTCTTCAAGCCCTCACCGCCACACCCTCCCGCGCCCAGTCCAGCCGGCGGCCACCACCTCGGCTATGACCCCACGGCCGCAGCTGCACTCAGTCTGCCCCTGGGAGCCGCGGCCGCAGCAGGCAGCCAAGCTGCTGCGCTCGAGGGCCACCCATACGGGCTCCCGCTGGCCAAGAGGACGGCCACGCTGACCTTCCCTCCGCTGGGCCTCACAGCCTCCCCCACCGCGTCCAGCCTGCTGGGAGAGAGCCCCAGCCTCCCATCGCCACCCAATAGGAGCTCATCATCTGGGGAAGGCACATGTGCCGTGTGCGGCGACAACGCTGCCTGCCAGCACTACGGAGTCCGCACCTGCGAGGGCTGCAAGGGCTTCTTCAAG
Seq A exon
GTGAGAGAGAGCATGCCTCCTCCAGGTACTTGCTCCGCTCAGCAGTCAGACCCCTTGCTGAGGCATCTAAGTGGGTGTAAGCTGGAGTCCTTGCCCTTGCCCGTGTGAAAGCTATAATCCCACACACCGTGCATTCCTAGGCCTAGAACTTCAGACCCATCTTTCCCAGGGTTTTTAAACTCAAAAGTTCCCGAATAAGCTGTCCATGCACTTGAAGGGCCTGCATCAACCTCCTGACCTGACATTTCCTTAGGTGGTGGTGGTGGTGGTGGTGGTGGTGGTTGTTGTTTCTGAACAGAGGTTTCTGCAGATTTTTAAAAGGATCCAAACTCCCACACCACCCAAACATCATCATCCCTTCTCTGTCCACCCAGAGTGTGAGAAAATAGCACCCTCATGCATGGCGGGCCTGGGCGTTAGTGTCTCGGTCTTCACAGGAAGAGCTGCGAGACTTAAGATTGAATGTTGGTCATTCACGGGCTGTTTCTGATTCAGTGTGCTTGGAAACTAGATCTTAATTATCGTTGTTTCTTAGAGGAGAAAATGGAGGTTCAGAGAGGTCATTCAATTGCCCCAGAACTCACACTCAGAGAGTGAGGTGGAGACAGGGGGTCAACTCATAATCTGTGTGCTCCCAAGATGCTCTGTGGTGGCAGAACCGAGGGGCAAGGTAGCTGGCTCGAGGCAGCTTGGGACAGCTTAGTCCATGGAAGGGTAGAAGGTAGAACTCAGGCCTTGCCAATCTACCCTGTCCTCTAGGAACGCTTACCTCCCTGCATCTGTGCACACACAGTGCCCACGACCATCATTCTCTCATAGACACAGTGGAGAATTGGAGAATCATCGGCCTCCCCCATATTAGCAAAGAAACTGAACCCTGGAGAAGTATCCTATACTCAGGCTTGTGGAGCGATGTGGCTTGCATATGGGATAAGGGACAGCTGGCTTCTCTTGACTCTGGAGTTCAATAGTCTTCCCCCCACCCCTGCCCCACTATGTGTGTGGGGGGGTGCAGTGGGGAGGGGGGGTTCAGCCTTCTTACTCTTTTGCTGTTCTTTCCGTTGTCACTGAGTCTCAGATGGTTCCAGATATTTCTGTGTCATTCTCTTTACACCCTAACCAACTGATACTTCAGGCACAAACAGACTCACATGAATAACATAGATGAAGGGGGATACTGATTGGGTGACAAGGATTTGGGAAGCAGAAAGAATGTTTATTTATGAGCCGGAATCGGGGCTGGAAGATTCAAATAGGAATCCTAACTTGACACCTATCCATTTGTAACATTGGACATAGGCCTTCTTTCTAGATCTTAGCTCCCCAACCAGCAGATCAAACACAATGAAAAGGCCATAGTAAGTAAGATATCAACATACAAGAGCGCGCCCTAGTCTTTAAGTCACAAAACAATAGGTATGGAATGAAGACTTGGTATTTATGACCATGCACACATTTGTGGTTAGATATACAAACCGACAGGCATCCGGTTGTCACATGACAATGGCTATCACATCACTCACTGAATTCTCCAGGTAAATGGAAGGGTGCTTGGGTAAATATGTTGCCATGTGCAAGGCCCCACAGATACACAAGTTTGTGATGCTTTAAGGGCGCACCTTCCTTTTAAATAAGCCGCTTAGGTTGCCTTTGTGTTTTCCCTTCAGTGTTAGGGGCTGAATCCGGGCAGGTGCTTTACCTCTGAGCTGGTCTCCAAGCCTGGGTTAGCCTCCCCCTTTTCTTCCTTTCTCCCCCTCCCCCTGCTACTCTGGGGGGGGGGTCCCATATAACTACATTCCTTTAGCGGGTTTGGATTTTATAAAATTTCAGTGGAAATGCTGAAGGGTGATAAACAGTCAGCAGGAAGGGAGAAAAGAAAGACATTCCAGGAAGAGATGAATGAAGACTACACGGCAGAGCCATCCCCAAACATTGAGAACTTAGTACCCCCATGGGAGTGTTAACATCTAGAAACTCACAGCAACCTTTCTCCAACACTTCCCTTTTCTTCAGCATTCCCTTGAAAACAGATCTATATTGGAAGGAAGGGTGGGGGCAGGCCAGGGTTAGGACCACCCCACAGATCTGTTAATTAAAGGAACTAGAACTGGATTTACCCAGTGGCTTTCTACCATTAAATTGAATTCTTTAAAAATGTGACATGAAGTGCAGTTAATGATGGGAATTCGGAGATTGAACTGTAACGATCTCTCGGTCCTTACACTGTGCAGACACACACAAGTGTGGAGGCCGGCTTCGGACTATTGGGGAAATGTACACCTGCAGCAGAATGCCACAGGCGCTTACATCCATCGGCACAGTGCCTTGGGGATAATGGCAGGAAAGGATGCTAGAAAGCATGGGCATGTTCTCTGAAAGAGAGCTTCATTCAAAGGCTGCTATCAGTGTAGACTGCTGAGAATGGAGGTGCTGAAAACTCAGCCCTGTGCAGCTGTGCCTTAGACTTGACATAGGCTGGCCTTGTCATATGTATAACCGTTCATTCCCTTAGGTGAAATGAACACATGACAGGGTAAAACTGAATCCTTGGGAAATAAGGAGAGTAGAGAATAAAAGCCGAAAGTAAAACTAGAATTTTTGAACCCAAAACACATCACCAAGCACAGCTTATCTAAACTTCTTTTAAAACATAGCCCAGACTTCCCAAATACATTCCAGTGTTCTGCTCTGAGTGGAATCCTGTAGATTCTGGTCCTTTTGGAACACTTCATTCTACGTGAAAAAATGTAACCATTTGCACAAAGGTTTTTTATGACTTTTTAAGCATTATTTTACATGTGGAGCATAGGAGATGTTTAATTATTGCCCCATGTGTTATTTCAAAATTCTATGTGATTCAGAAATATGTGATGTTATTTTTATCTCCAGCATCAAGTTTTATGGTGTGCCTTTAATAATGTGGTTCTTTTTGGTGTCTGAAATAATAGTCATTTATGAAATCCTGAGGTGTATATATGGCTTTCCTATTTTTTTCCTTCTCTTATTCCTACTTGGCTTTGGGTTTTCATTCCTGGATATGACAGTGATTTTTCTACCCAACTTTAAGAATGTGCTTTTCAAAGTCAGAAATGGACAGTTTATTATATGCATCCTCTAAAGATAAAACAAACTAAGTAGTACAATCACATGGATTTATTTTTTTTTAGTTAAAACATGATTTCTTATATGTTTTAGAATGAAAACATTATTTCCTATACATTTTAACAAGACAAACTCAGATTTTATTCTGTATGGCTTCACCTCTATTGAGTAACAAAACCAGTTATTGAGATGTCTGGCAATGTCTGGTATAATAGTGATACCATACATAGTACAGCCCAGATAGTTCTGATTTTATTTTAATAAGGTCAGTGATAATCAGGGGAGTAGAACAAGTAGAAAATTGTTCCCAAGGGGATATTAAAAGTGGAGATAATCTAATCCTCCAAGGTACGATATGTTGACCTGGTAATTTCAGATATGATTTTATCATTCAGAGTTGGGTGCCTCCTGAGACTCGCTTCAGAACAACCCAAGATGATTTTCACTGTCAGCCAGGAACACTAATAAAATTGTTTTTCCTGCAGGCTAGCGTGTTAGGAAATTAAATTTATCTAATTATACAAATTGCACTGTCGCTTTTCACGTTGTAATTAAAATACATCTTGTCAGGTCTTGCCTCTTTCCAGAAACTATTAGTTGACTATCTCTGTGTTATATTTTCTCAG
Seq C2 exon
AGAACGGTGCAGAAAAATGCAAAATATGTTTGCCTGGCAAATAAAAACTGCCCAGTGGACAAGAGACGCCGAAACCGATGTCAGTACTGCAGATTTCAGAAGTGTCTCAGTGTCGGGATGGTTAAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028341:ENSMUST00000030025:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.564 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0010513=zf-C4=PU(38.6=8.5)
A:
NA
C2:
PF0010513=zf-C4=PD(58.6=93.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
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