RnoEX6016668 @ rn6
Exon Skipping
Gene
ENSRNOG00000012682 | Nr5a1
Description
nuclear receptor subfamily 5, group A, member 1 [Source:RGD Symbol;Acc:68350]
Coordinates
chr3:23008165-23016566:-
Coord C1 exon
chr3:23016425-23016566
Coord A exon
chr3:23013937-23014565
Coord C2 exon
chr3:23008165-23008284
Length
629 bp
Sequences
Splice sites
3' ss Seq
CAGACTGCTCCTGCCCACAGCTG
3' ss Score
8.43
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
Exon sequences
Seq C1 exon
GGCTTCTTCAAGCGCACAGTCCAGAACAACAAGCATTACACGTGCACCGAGAGTCAGAGCTGCAAAATCGACAAGACGCAGCGTAAGCGCTGTCCCTTCTGCCGCTTCCAGAAGTGCCTGACGGTGGGCATGCGCCTGGAAG
Seq A exon
CTGTGCGTGCTGATCGAATGCGGGGCGGCCGGAACAAGTTTGGGCCCATGTACAAGAGAGACCGGGCCTTGAAGCAGCAGAAGAAAGCACAGATTCGGGCCAATGGCTTCAAACTGGAGACCGGACCACCGATGGGGGTTCCCCCGCCACCCCCTCCCCCACCGGACTACATGTTACCCCCTAGCCTGCATGCACCGGAGCCCAAGGCCCTGGTCTCTGGCCCACCCAGTGGGCCGCTGGGTGACTTTGGAGCCCCATCTCTGCCCATGGCCGTGCCTGGTCCCCACGGGCCTCTGGCTGGCTACCTCTATCCTGCCTTCTCTAACCGCACCATCAAGTCTGAGTATCCAGAGCCCTACGCCAGCCCCCCTCAACAGCCAGGGCCACCCTACAGCTATCCGGAGCCCTTCTCAGGAGGGCCCAATGTACCAGAGCTCATATTGCAGCTGCTGCAACTAGAGCCAGAGGAGGACCAGGTGCGTGCTCGCATCGTGGGCTGCCTGCAGGAGCCAGCCAAAAGCCGCCCTGACCAGCCAGCGCCCTTCAGCCTCCTCTGCAGGATGGCGGACCAGACCTTTATCTCCATTGTCGACTGGGCACGAAGGTGCATGGTATTTAAGGAGCTGGAG
Seq C2 exon
GTGGCTGACCAGATGACACTGCTGCAGAACTGCTGGAGTGAGCTGCTGGTGCTGGACCACATCTACCGCCAGGTCCAGTACGGCAAGGAAGACAGCATCTTGCTGGTCACTGGACAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012682-'7-3,'7-2,11-3=AN
Average complexity
A_C1
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.538 C2=0.000
Domain overlap (PFAM):
C1:
PF0010513=zf-C4=PD(64.3=93.8)
A:
PF0010425=Hormone_recep=PU(19.8=19.5)
C2:
PF0010425=Hormone_recep=FE(18.8=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCTTCAAGCGCACAGTCCAG
R:
GTCCAGTGACCAGCAAGATGC
Band lengths:
254-883
Functional annotations
There are 1 annotated functions for this event
PMID: 19995909
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: coimmunoprecipitation, gal4 vp16 complementation, mutation analysis. ELM ID: ELMI002003; ELM sequence: PYASPP; Overlap: FULL
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]