MmuINT0110556 @ mm10
Intron Retention
Gene
ENSMUSG00000026751 | Nr5a1
Description
nuclear receptor subfamily 5, group A, member 1 [Source:MGI Symbol;Acc:MGI:1346833]
Coordinates
chr2:38710656-38712234:-
Coord C1 exon
chr2:38712006-38712234
Coord A exon
chr2:38710773-38712005
Coord C2 exon
chr2:38710656-38710772
Length
1233 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCGG
5' ss Score
8.17
3' ss Seq
ACCCGATCCTCCTTCCACAGGCG
3' ss Score
9.38
Exon sequences
Seq C1 exon
GCATATAGAGCGGCCACCCCGGCCCCGCGCGGCGGGTTCGCGAAGCGCGCAGTGCGGCGGAGGGGCCCGGGTCCCAGGTGCGCCTCGAGCAGCCCCGCGGGCGGCGGGCGCGGGGAGGCGGGGGCAGAGCGGGACGGTCTCCCCGCCCTCGGCCCGAGTGGCCGTCATTGCGGGCGGGCGGCGCTGAGCCCGGGTGCGGCTTCATCGCGGGCGGCGGCGCGGCCAAAAG
Seq A exon
GTGCGGGGTTCGGTGCGGGCCGAAGGCGGGGTGCTGCTCGCGGGAGCGGCCTGGGTGGGCGCCGCCGTCGTACTGGCTCTCACGTTCCTGGCCACGGCTCTCGGGATTTGGACTCTCCGTCTGAGGTCTACCGCAGCCTGTCTCCCACTCTCTGTACCCCTTCTCCGCCGGAGGTCTCCGCCCCGCTCCCGCGACCCGGCTGCGCCCTCAACGCCCGCTCCCGGCCCGACGTCTCGGCTCGCCGGTGGGTGCCGTCGCTGCGTGGCTTTGTCTGCGGACCCAGCGGCCCGGCGCCTGGGTTCTCTGCTTCTCAGGGTCGGCCCCTGTCCCTCCACGGGGCCACGCCTTGGAGCTCTCTGCCCGAGCCGCAGCCTGCCGAGAGTCTGTCTCCCCATCCCCGACCCTCTCGCTGGGCACCTCCGTCCTTCAGGTTTTGCGTTTGTGTTTCTGTCACTCTCGCTGCCGCGGTCTTTCCAGGGTGTCTCTCCTTGCTCAGTGTCTCTCACTGTGTCTCTGATTCTGTGTCTCCGTGGTTTTCTCGTTGGGCCTGTCACTCCTAGCCTCTGATCCCGTCTTTTTCGTTACCCATCACAGGTCTTTCGTCTTTTCACTATGTACTGTATATCGATCTTTTTAAATCATCTATCAGTCACCGATCCACCATCTGTCCATCATCCATCTCACCTATCATTTATCTATCATCTATCTACATAATCTATCAATATCTACCTACCTACCTACCTACCTACCTACCCAATCAACCATCTACGAATCTCTCCCAATGTCGTTGGCACCGCATTCCTGTCCCTGTCACCCAGGATCCCCTCTCCGTTGAGCAGTACTGGCTGGAGTCTCTGTCTCTTCTAGACTCTCTGCCTCAGGTCTCTGTCGGGGCCCCCAGAACAATCCAGCTGTGTGCCCTACTTCGCCCTGGTTCCCTGGCGTCTGTCTTGCCCGCGTCCGAGCCTATCTGATTTTCTCAGAATCGGGGTTTTGTTCTCAGACAAACGAATCTGGATGGAAATGCATCGAATCCGAGGGTCCCGGATCGGGCGCGGCAGAGGCGGCGAGGAAGCAGCCCTGGAACGCGGCGGGTGGCTGAGCTGCAGCGCAGGGACATGGCCCACAAACCCCCGCACCCGGCCCGGGCTGGGGACCGCCCCGTGTGCACAGACCAGGGCAATCCCAAGCCAGTCGCCGTCGGCCCGCGCTGACCCGATCCTCCTTCCACAG
Seq C2 exon
GCGGACGCCGCGGGCATGGACTATTCGTACGACGAGGACCTGGACGAGCTGTGTCCAGTGTGTGGTGACAAGGTGTCGGGCTACCACTACGGGCTGCTCACGTGCGAGAGCTGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026751:ENSMUST00000112883:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0010513=zf-C4=PU(32.9=67.6)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCATATAGAGCGGCCACCC
R:
CTTGCAGCTCTCGCACGTG
Band lengths:
346-1579
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