MmuINT0110550 @ mm9
Intron Retention
Gene
ENSMUSG00000026826 | Nr4a2
Description
nuclear receptor subfamily 4, group A, member 2 [Source:MGI Symbol;Acc:MGI:1352456]
Coordinates
chr2:56965362-56967449:-
Coord C1 exon
chr2:56967129-56967449
Coord A exon
chr2:56965484-56967128
Coord C2 exon
chr2:56965362-56965483
Length
1645 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
TTCCTGTGTCTGTATTTCAGGGA
3' ss Score
11.23
Exon sequences
Seq C1 exon
GGGGAGCGCGGCGGCTCGGCGATTGGACCGCGGGCCGCTGACGCGGGCTGACGCGCGCAGACTTTAGGTGCATGTTGGCAGCAGCAGCTCGAGCCACATAAACAAAGGCACATTGGCGGCCAGGGCCAGTCCGCCCCGCGGCTCCGCACAGCTCCGCGTCCCTCTCTCCGGCCCCGCTGGCTGCCTCCCTCTCCTGCGGCCGGGCTGGCTGCGTGTGGCTCTCCGCGCCCCGCTTCCGCAGCGCTCCCGCGGACCCGGGCTCCTCTGCTCCCGGAGGGAACTGCACTTCGGCGGAGTTGAATGAATGAAGAGAGCGGACAA
Seq A exon
GTGAGTAGCTGCGGCGGGGCCGCCCGCGGTCACGCGTCCTCCCGGTCTCCGCGTACCAGGGAACGGGTTCTCTGCAAGTGGTCGCCCGAGCCGCGGAGCGCGAAGGGGCTGGGGAAGGGGGATGGCGAGTGGGCGCGCGCAGCTCCGCCGAGCCTCTGCTGGAACTCCGGTGCTAGCGTAAAGGGGGGGGAGTTGGCTGCCGGCAGAGGTTTCCAGGCTTCTCATTGGTGGATGTGGCAAGGGGACTCCCACAGTTTTAGGAGAAGCGGACTTGCCGGTGGAGATGTGCGCAAAGTTTGCTCTTGGTGTGAAATTGATTGTGGCTTGAGGAGGCTCCATCTCGCGAACATGTGGGAAACAGTCCGGGAGAGAAAGTTTACGTGTTGCTTGGGAACAGTGTCGCTCGGCTCGCCCGCTGGTGGAGGTTTCCCGGATATCGTCGAGTAAGGGTAGTGTCGGTAGAGGGTCCTGTAGCGAAGTTGCCTGAAATGACTGGTTTTGATATATGTTGTCCTTGGATAGTGTGTCAGTGTGTGCGTGAGGTAAAGAATACGGTTATGAAACTGTGACATAGCCACGGGTTAATATCCAGAACAGACATATTTTCAAGGGCGGCGGCGGATGGGGGTGGGGAGATAAAGCAAAAGTCCTCTGGTTTGTCTTGTTAACCTTCTCCGCTCCTTGAAGCAAAGCAAGATTGTGGAAGAAGTGGGGGGGGGGGCGGAGAGGGGAGGGAGCAAAGGAGAGGGTGTTCAGGTTTCTTTACTTTATCAACAAGATCGTCTATGCTCTAGAATGCCTTGCAAGTGGGAACATCTGAAAAAAAAAATAGCTAGGACACAAGAATGCCTTGTCCCAGCAAGTAGGCAGCCTGTGGAAAGCATTGTGGAGAAGGTGTCCAGTTTGCTGTGCTGAGAAGTGCTTCTAACTTTGGTGCCAATATCATATGCGTAATATTTCTTTCCCTCTGCAGTTGACCCAAGATACTCCTGGTAAAGTAGAGATCTCTCTCATCACCTCTGGGCCATTAAAGATGTTGAAAATCCAGTTCTCTGGAGGAACACCAATTCGCTTGTCCCTTAAGATCCTGTGTTGAACCAAAAGCAATTACTAAAGCTACACACTTGCTCCCACATTGGCTGTTTGGTTGTCCAGGCCTTGCTAACGTTTCCTAAGGGTTGGATCTGTATTTTTTTTTTCACGGTTTACTCTCGAGTTCTTTTAACTTTCTTTCTCCTTCTAAGAGAAAAGTCCACTGGACTCTAAGAGAGATATTAAGAGGAAGCTTTGATGCTGTGTTTTTCCTTTACCCAGACTTCTTAGGTTTGACATAAAGTAGAATGACAAAGGCCCTTCCATCTACAGCAAAGGGGCCAATTCATTATATTGATCAGTATCTGGTAGACTCATGGGATAATTTCCCCACAGGATGCTTTCTCTGCAGGGATTTACACTGGGAGATGAGCGGCATTATCTGCTGTTTAGCCACCTTGTCTCTGCACATTTCATTTTAAGATGCTGTTGGGTAAAGTCTTCACACTCATTTCCAAGGAAGCACTTGAAGGGCCTGCTGAGTGAGTCTGCATCTGCCCAGCCCAAGTCTCGGTGGGAAGACATCCTGAAACTTCCTGTGTCTGTATTTCAG
Seq C2 exon
GGAGATCTGACGGGCTGGATTCCCAATAGCTCTTTTTTAAAATCTTGGAAACTTTGTCCTTCGCTGAATTACGACACTGTCCACCTTTAATTTCCTCGAAAACTCCAATAACTCTGCTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026826-Nr4a2:NM_013613:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGCAGACTTTAGGTGCATGT
R:
TGGACAGTGTCGTAATTCAGCG
Band lengths:
350-1995
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: