MmuINT1024521 @ mm10
Intron Retention
Gene
ENSMUSG00000026751 | Nr5a1
Description
nuclear receptor subfamily 5, group A, member 1 [Source:MGI Symbol;Acc:MGI:1346833]
Coordinates
chr2:38707911-38710551:-
Coord C1 exon
chr2:38710410-38710551
Coord A exon
chr2:38708540-38710409
Coord C2 exon
chr2:38707911-38708539
Length
1870 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCGC
5' ss Score
9.05
3' ss Seq
CAGACTGCTCCTGCCCACAGCTG
3' ss Score
8.43
Exon sequences
Seq C1 exon
GGCTTCTTCAAGCGCACAGTCCAGAACAACAAGCATTACACGTGCACCGAGAGTCAGAGCTGCAAAATCGACAAGACGCAGCGTAAGCGCTGTCCCTTCTGCCGCTTCCAGAAGTGCCTGACGGTGGGCATGCGCCTGGAAG
Seq A exon
GTGCGCGTCCTGCACGCCCGGGACCCCCTGACTGCTGGCCGCCCCAGGGAGCCGCGGGCGGGCCTGGGAGAGGGGCTGAGGGGAAAGCGGAGCAGTTTCTGGATCCAGGTGATTGGCCCCTCGGCGTGACGTTGGGGCCCCAGCTCTGCAGGGAGCAGAGGCAATTAGGGAGTCTAGCGCCAGAAGAGTGTAGCATGTAGGGCCTGCCTGGGCTCAGTCCCAAAATATCAAAAATGAGACTTCCAGAGTATGGTGGTCCATCCCTGAAATCCTAGGACTCTGGAGACTGAGGCAAGGTGGTTGCTAGTCATCATATTGAGATCCAGTATCTCCCCACCCCCACCCCTACCTCGGGAGGCAAGTCTTTCTCCAGGACAGAACTGTGCCCCAATAGTCCCACTGTATGAGAAGCTCCCAAACAACCCCATAAATTCCCCAAGCCAGCCAAAGCCACAGCTCTCAATAACTTGACCATGTTCAAATCCCAGCTTTATCACTTGTAGACTAGGGACTTCTCTGAGCTGCAGATGCCCCCATTTGAATAATGAAGTAAAAAAGTAATGCTTGCCTTGTGTTAGTGGGAGGACTGGGGGGAGGGGGAGTAAGAAAAAGCGGGAGTTGCCTGCTGTGAAGGGAAAGACTCGGCAGAATAGCTGTAACTGCCATTACTATCACACTTTCTGATGCTATTTGTCCATCGCTCTTTAGACTGTGCATCTGTCTGTCTGTCCGTCTGTCTGTCTAGGCATGTAAGTTTCATGGGAATTGAGATTCCTTCCCATGCATTCAGAGTCCACCCCTGAGAAGGTTGGGGTGAAGGGAACAATGGTCTATAGCTGCCTCTCCCCTTCTGTTTTGGTCCAGAGAGGAAAGCAATGGTCCATCAGGAGAGACTCAGAGAGTGGACAGTCATAGCTTCTACCCCGCTGGCCCCAGTCGGGCTGAGCGCCCAGCCAGCAGCTGTTGGCTAAAGTTTTTGCAGAGAAGGCCCTGAAGGCTGGGGAAAGCGGTGGACACATCCTGCTACCTAGAGAGGGACTCAGATTGAAGGAGGTACCCTGTCCCGTGTCTAGATCCCTCATGCCTAGGTCCAGGTCCCAAGCAGGCAGAGAGCTGGCTACTGCGGGTGGCAGAGCCTGCACAGCAACCTGAGGGAGCAAAGCCCCACTGTTCACCTCCCGGCAGGAAGATATGTGGCGGGCAGGCTCCCAAGGCTTTGGTTGTGTGGAACACCACCCCTCTCCCTTTTCTCAGAGCTTGGGTGGGGTCCTGTCTGAGCAAGGGCTGGAGCCACACTGGAGCTGCAGAGATGCACCTGTTGAGTCTGGCTGGTGACACATTCTTGGCCAGGAGAAAAACATCTGGTCAGCGAAATAGGTCCCCTCCTCCAGCACCAAACCCAGGCTCACAGTAGACTGCCGTGGGGGAAGCTTTGTACAATCAAGAAGGCACCCCACCGTGAGCAAAGCAGACTAGGGCCCCTTTGCTTTGCCCATCTCCCTGTCAGAGCCTGGACGGGGCGCCTGAACCCAGGAGCTCTCAGCCTGAGGTATGGGGCAGGACAGGAGGTTCTGCCTGGGGGAATTCTGAGACTTCCTGGAGGTGGCAACATTGGACTGGGTGTTAAGTAAATGCAAGAAAAAGAAAGGGGTTCCAGGCAGAGGGGAGGGTGGGTGAGTGGGTGGAGGAGAGAGAGATGGGGTCAGGAGAATGTGGAGAAAGGCCTGGGATGCCAAACCAAGGCTGATGAAGACCACTGAATAGGAATGGGGAATGGTATAAGCGTGTGTGAGAGAGACATATCTTTTGGGAAAAGATCTGTGGCAGACAGTTGGGAAGGTAGAACCTGACAGACTGCTCCTGCCCACAG
Seq C2 exon
CTGTGCGTGCTGATCGAATGCGGGGTGGCCGGAACAAGTTTGGGCCCATGTACAAGAGAGACCGGGCCTTGAAGCAGCAGAAGAAAGCACAGATTCGGGCCAATGGCTTCAAGCTGGAGACCGGACCACCGATGGGGGTGCCCCCGCCACCCCCTCCCCCACCGGACTACATGTTACCCCCTAGCCTGCACGCACCGGAGCCCAAGGCCCTGGTCTCTGGCCCACCCAGTGGGCCGCTGGGTGACTTTGGAGCCCCATCTCTACCCATGGCTGTGCCTGGTCCCCACGGACCTCTGGCTGGCTACCTCTATCCTGCCTTCTCTAACCGCACCATCAAGTCTGAGTATCCAGAGCCCTATGCCAGCCCCCCACAACAGCCAGGGCCACCCTACAGCTATCCAGAGCCCTTCTCAGGAGGGCCCAATGTACCAGAGCTCATATTGCAGCTGCTGCAACTAGAGCCAGAGGAGGACCAGGTGCGCGCTCGCATCGTGGGCTGTCTGCAGGAGCCAGCCAAAAGCCGCTCTGACCAGCCAGCGCCCTTCAGCCTCCTCTGCAGAATGGCCGACCAGACCTTTATCTCCATTGTCGACTGGGCACGAAGGTGCATGGTCTTTAAGGAGCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026751:ENSMUST00000112883:3
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=0.538
Domain overlap (PFAM):
C1:
PF0010513=zf-C4=PD(64.3=93.8)
A:
NA
C2:
PF0010425=Hormone_recep=PU(19.8=19.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAAATCGACAAGACGCAGCG
R:
GCACAGCCATGGGTAGAGATG
Band lengths:
356-2226
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