MmuINT0110541 @ mm10
Intron Retention
Gene
ENSMUSG00000023034 | Nr4a1
Description
nuclear receptor subfamily 4, group A, member 1 [Source:MGI Symbol;Acc:MGI:1352454]
Coordinates
chr15:101272718-101273193:+
Coord C1 exon
chr15:101272718-101272920
Coord A exon
chr15:101272921-101273014
Coord C2 exon
chr15:101273015-101273193
Length
94 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGC
5' ss Score
8.8
3' ss Seq
TGTTCTCTGCCTTCTGCCAGATC
3' ss Score
10.53
Exon sequences
Seq C1 exon
TTCCAGGAACTGGTGCTGCCCCGCTTCGGGAAGGAAGATGCCGGTGACGTGCAACAATTTTATGACTTGCTCTCTGGTTCCCTGGACGTTATCCGAAAGTGGGCAGAAAAAATCCCTGGCTTCATTGAGCTTTGCCCAGGAGACCAAGACCTGTTGCTAGAGTCTGCCTTCCTGGAACTCTTCATCCTCCGCCTGGCATACCG
Seq A exon
GTAAGCTGCCCACCATCCTCCTAGCCCTGGCCCCAGCCCTGCGGCCCCGGCCTGCCTGGACCCTGAGTCCTGACTGTTCTCTGCCTTCTGCCAG
Seq C2 exon
ATCTAAACCCGGTGAGGGGAAGCTCATCTTCTGCTCAGGCCTGGTACTACACCAGCTGCAGTGTGCCCGTGGCTTTGGTGATTGGATTGACAACATCCTGGCCTTCTCACGGTCCCTGCACAGCTTGGGTGTTGATGTTCCCGCCTTTGCCTGCCTGTCCGCTCTGGTCCTCATCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000023034:ENSMUST00000023779:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=PU(32.5=91.2)
A:
NA
C2:
PF0010425=Hormone_recep=FE(31.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGAGACCAAGACCTGTTGCT
R:
CGTGAGAAGGCCAGGATGTTG
Band lengths:
177-271
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