DreEX6081660 @ danRer10
Exon Skipping
Gene
ENSDARG00000000796 | nr4a1
Description
nuclear receptor subfamily 4, group A, member 1 [Source:ZFIN;Acc:ZDB-GENE-040704-11]
Coordinates
chr23:32227339-32228826:-
Coord C1 exon
chr23:32228697-32228826
Coord A exon
chr23:32227844-32228007
Coord C2 exon
chr23:32227339-32227541
Length
164 bp
Sequences
Splice sites
3' ss Seq
TATATTGTCCCTCTGTGTAGTTG
3' ss Score
7.18
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
Exon sequences
Seq C1 exon
CGCACAGTACAGAAGAACGCCAAATATGTTTGTCTCGCCAACAAAGACTGTCCAGTGGATAAAAGGCGGAGAAACAGATGCCAGTTCTGCCGCTTCCAAAAGTGCCTAGCTGTGGGGATGGTGAAGGAAG
Seq A exon
TTGTAAGAACAGACAGCCTGAAAGGAAGAAGGGGGCGTCTGCCATCCAAACCCAAAGCTGTTCAGGACTCAGTGTCTGTCTCTTCACCTGTGAACATCATCGCCTCTCTCGTTACTGCCCATATCGACTCAAACCCTGCCAGTGCAAATCTGGACTATTCAAAG
Seq C2 exon
TATCAGGAATCAACATCTGGATTGCCTGAGAAGGAAGATGCCAACGACATACAGCAGTTTTATGACCTGCTAACAGGGTCAATGGATGTGATCAGGAAGTGGGCTGGAAGCATCCCTGGATTCAGTGCCTTTTGTAAGGAGGACCAAGAGCTTCTTCTGGAGTCAGCTTTTGTTGAGCTCTTCATACTTCGTCTAGCTTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000000796-'4-8,'4-7,5-8=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.200 C2=0.015
Domain overlap (PFAM):
C1:
PF0010513=zf-C4=PD(58.6=93.2)
A:
PF0010425=Hormone_recep=PU(0.5=1.8)
C2:
PF0010425=Hormone_recep=FE(33.8=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCACAGTACAGAAGAACGCCA
R:
GAATCCAGGGATGCTTCCAGC
Band lengths:
252-416
Functional annotations
There are 2 annotated functions for this event
PMID: 11274386
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: mutation analysis, protein kinase assay. ELM ID: ELMI000100; ELM sequence: RGRLPSKPK; Overlap: FULL
PMID: [1]
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: mutation analysis. ELM ID: ELMI000099; ELM sequence: RGRLPSKPK; Overlap: FULL
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]