MmuINT0110556 @ mm9
Intron Retention
Gene
ENSMUSG00000026751 | Nr5a1
Description
nuclear receptor subfamily 5, group A, member 1 [Source:MGI Symbol;Acc:MGI:1346833]
Coordinates
chr2:38566176-38570062:-
Coord C1 exon
chr2:38569877-38570062
Coord A exon
chr2:38566293-38569876
Coord C2 exon
chr2:38566176-38566292
Length
3584 bp
Sequences
Splice sites
5' ss Seq
TCAGTAAGT
5' ss Score
9.14
3' ss Seq
ACCCGATCCTCCTTCCACAGGCG
3' ss Score
9.38
Exon sequences
Seq C1 exon
GAGGGGAGGAGGAAAGGACGATCGGACAGGGCCAGTTTCCAGTCCGCCGCTGCCCGCCCGCTGCTGGGTGAAGAAGTTTCTGAGAGCCCGCTAGCCACTGCCCTACCTGAGGCCTGGGAGCCTCCCCACCAGGACCCTGGTGTCCAGTGTCCACCCTTATCCGGCTGAGAATTCTCCTTCCGTTCA
Seq A exon
GTAAGTGAAGGCCGGGGCCCAGGCCTCTAATGGCCAGCCTCCCTCTTCAGTGCCTTGCTCCGGCCTAGACTGGCCACTGCCTGCTCTACAGAATGACCAGCGCCCACCAATCTGGGCAGGGAAAAGGCCAGGGGTCTCTCTAGATCCATTTCCCCACTACAATACCCCTCACCTTTCCTATGGTGTGCTACAGAGGAGCTAGGCCTATGGCGACAGACCCAGTAGGGTCTGAGGGTGGTTGGTGGTGTCTTAGAGGTAGCCGGGGGTTCCTGAGGGTGTGGTGTTCTGTGTCTGTCCTGAGGGTTCTCTTAGGTTTGTCTTCTGGTCTTGGAGTCTTGCTGCCTGAGTGTCTGAGTTGCATCTATGGAGGAATCTGAGCCTCCATATGTGTATGTCTGTGTTTCTACTGTAAGTCGGGGCCAGTGTCTCTTTTGCTTCCCTGGGTAGATGGATGAAGGGCTGTGCGTCACTATAAGAGTGTACAGGAAGGGGGGACATTCAGTGGGCCCCTGGAGGAAAGGGTTGAGATAGAGGCAGAAAGGTAGAGAGCAGCTTGGTGCCCATCCCCCATCCTACCAGGGATTTAGCCCAGAGGAGTGTCCACATTATCCAAGATGCCCCTGGTGGGCTACTCGAGAGCCCAGTCAGAATCCCAACCAACCTCCATTCCTTCATCCCCATTGCCTGCTGGCCTCTGAGCCTAGGTTCATCTGGGGGCTTTTGTTTTGGTTTTGTTTGTGTTTTTGCAATGTAAGAAATGAACGGCAGAGCCTCACACTGGGCGTGGTCTGCCACTGAACCCCATTCCCTCCCCAGTTTCACTTTCTGAGGGTTCCTATCGGGAGGGAATTTGTTCATAAGCCCGTGTAGCCCCTATCCCTGAGGTTTAGGTGCCAAGTGTGGGGAGAGGGCCTGATCTGGCTCGCTCTCCTTACTTCTACGATTCATCCACTTCAGCCACGCAATTTCACTCCTCAGCTCTGTAGGACGGTAGGGAGTGACTTGCCTGAGCTAGGACTGGACAACCACATCGGTTAGATTCGGTGGTTCTTCCCCCCATCGGGTGAATGACTTGAGAGGTTCGCTGTGCTAGGTCCAAGCACAGCTTTGTCCAAGCACCCTAGTCCAGCACCCACAGAAACCCGAGCCACGGGTGGGATCCACACAGAGTTTTGAATGGGTGGGTCTCTGCCAAGGCATAACTGCTGTGCTTCCCCACTGAGGCTTTCTGGCGTCCATTTCCAGTCCCTGGCACTGACTTCCACCCCTGGTGGCTAAGGAGACTGGGCTGGATTGAGTAGGCCTCTTCAAAGATCTCTCAACCTTAGTTACTTAACTTGAAAAGCCATCTGGTCTGGTGCACGCTTCCAGCCCAGAGCAACTGCTCTGCCACCTCACCCGCAGGCCCAGTAGTTCTCCCCACCCACCCCCCCCCCCGCGTTCTCCCCCTCCCCCTTAGCTAGAGCAGAGCTCACAGGGGCGCCTGGGTATAGCCCCACGGCTTTGCTTTTCGGGCTCTGCGCCCATGGAGCTCGGGCTGCTTACCAGACCTTGGGATGCCGTAGAGTGGAATTGACCATACATCCCATTTCCAGGCGAGCAGCCTGAGGGAGACTCCTGGTAATGGGGTTCGCCCCCCGGAACTCTTGCTGTCCACTGCACCACATCCATTTTCAGCCACACTCTGGGAGAGCTGGCTTCGGGTTAAAATACAGGGCTGGAGTGGGTGCCTGCAGCCTGAAGAGGCAAATGTGGTAGTGCTAACTCAAAAGTCCAGTTTTTCCTTGCTCACCGCCCCACTCACACCCTTAACCACTTTCACGCGGCCAAACGACCAGCGTTCAGGCCTCGGCACCCCTAAACTGGACTAGCAAACGGGAGGTCGCCTCCTCCCTGCGCAGGGGGAGGCCCGAAGCTTCCCCGCACACGGCACCTGACCGGATTCCGGGGGTGCTCAGGGTCCCCAATTCTCTTAGAACTCGCGGGCTTCGGAGGATCGAGCTGGAACTGGAGGGCCAGGAGGTGAGGGTGAAGGCCGAGTGGGGCTGTAGGGAGGGCAGGGCACAGGCCAGGTTGTGGGGAGGACAAGAACCGCGCCTCCGCCCCCGGATACCGCACGCGCGCATATAGAGCGGCCACCCCGGCCCCGCGCGGCGGGTTCGCGAAGCGCGCAGTGCGGCGGAGGGGCCCGGGTCCCAGGTGCGCCTCGAGCAGCCCCGCGGGCGGCGGGCGCGGGGAGGCGGGGGCAGAGCGGGACGGTCTCCCCGCCCTCGGCCCGAGTGGCCGTCATTGCGGGCGGGCGGCGCTGAGCCCGGGTGCGGCTTCATCGCGGGCGGCGGCGCGGCCAAAAGGTGCGGGGTTCGGTGCGGGCCGAAGGCGGGGTGCTGCTCGCGGGAGCGGCCTGGGTGGGCGCCGCCGTCGTACTGGCTCTCACGTTCCTGGCCACGGCTCTCGGGATTTGGACTCTCCGTCTGAGGTCTACCGCAGCCTGTCTCCCACTCTCTGTACCCCTTCTCCGCCGGAGGTCTCCGCCCCGCTCCCGCGACCCGGCTGCGCCCTCAACGCCCGCTCCCGGCCCGACGTCTCGGCTCGCCGGTGGGTGCCGTCGCTGCGTGGCTTTGTCTGCGGACCCAGCGGCCCGGCGCCTGGGTTCTCTGCTTCTCAGGGTCGGCCCCTGTCCCTCCACGGGGCCACGCCTTGGAGCTCTCTGCCCGAGCCGCAGCCTGCCGAGAGTCTGTCTCCCCATCCCCGACCCTCTCGCTGGGCACCTCCGTCCTTCAGGTTTTGCGTTTGTGTTTCTGTCACTCTCGCTGCCGCGGTCTTTCCAGGGTGTCTCTCCTTGCTCAGTGTCTCTCACTGTGTCTCTGATTCTGTGTCTCCGTGGTTTTCTCGTTGGGCCTGTCACTCCTAGCCTCTGATCCCGTCTTTTTCGTTACCCATCACAGGTCTTTCGTCTTTTCACTATGTACTGTATATCGATCTTTTTAAATCATCTATCAGTCACCGATCCACCATCTGTCCATCATCCATCTCACCTATCATTTATCTATCATCTATCTACATAATCTATCAATATCTACCTACCTACCTACCTACCTACCTACCCAATCAACCATCTACGAATCTCTCCCAATGTCGTTGGCACCGCATTCCTGTCCCTGTCACCCAGGATCCCCTCTCCGTTGAGCAGTACTGGCTGGAGTCTCTGTCTCTTCTAGACTCTCTGCCTCAGGTCTCTGTCGGGGCCCCCAGAACAATCCAGCTGTGTGCCCTACTTCGCCCTGGTTCCCTGGCGTCTGTCTTGCCCGCGTCCGAGCCTATCTGATTTTCTCAGAATCGGGGTTTTGTTCTCAGACAAACGAATCTGGATGGAAATGCATCGAATCCGAGGGTCCCGGATCGGGCGCGGCAGAGGCGGCGAGGAAGCAGCCCTGGAACGCGGCGGGTGGCTGAGCTGCAGCGCAGGGACATGGCCCACAAACCCCCGCACCCGGCCCGGGCTGGGGACCGCCCCGTGTGCACAGACCAGGGCAATCCCAAGCCAGTCGCCGTCGGCCCGCGCTGACCCGATCCTCCTTCCACAG
Seq C2 exon
GCGGACGCCGCGGGCATGGACTATTCGTACGACGAGGACCTGGACGAGCTGTGTCCAGTGTGTGGTGACAAGGTGTCGGGCTACCACTACGGGCTGCTCACGTGCGAGAGCTGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026751-Nr5a1:NM_139051:1
Average complexity
IR-C
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),PF038549=zf-P11=PU(15.4=23.5)
Main Inclusion Isoform:
NA
Main Skipping 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
Other AS DBs: