DreEX6081661 @ danRer10
Exon Skipping
Gene
ENSDARG00000000796 | nr4a1
Description
nuclear receptor subfamily 4, group A, member 1 [Source:ZFIN;Acc:ZDB-GENE-040704-11]
Coordinates
chr23:32227080-32228007:-
Coord C1 exon
chr23:32227844-32228007
Coord A exon
chr23:32227339-32227541
Coord C2 exon
chr23:32227080-32227276
Length
203 bp
Sequences
Splice sites
3' ss Seq
TATTTTCGGTAATTGTCTAGTAT
3' ss Score
2.23
5' ss Seq
CAGGTGCGT
5' ss Score
9.73
Exon sequences
Seq C1 exon
TTGTAAGAACAGACAGCCTGAAAGGAAGAAGGGGGCGTCTGCCATCCAAACCCAAAGCTGTTCAGGACTCAGTGTCTGTCTCTTCACCTGTGAACATCATCGCCTCTCTCGTTACTGCCCATATCGACTCAAACCCTGCCAGTGCAAATCTGGACTATTCAAAG
Seq A exon
TATCAGGAATCAACATCTGGATTGCCTGAGAAGGAAGATGCCAACGACATACAGCAGTTTTATGACCTGCTAACAGGGTCAATGGATGTGATCAGGAAGTGGGCTGGAAGCATCCCTGGATTCAGTGCCTTTTGTAAGGAGGACCAAGAGCTTCTTCTGGAGTCAGCTTTTGTTGAGCTCTTCATACTTCGTCTAGCTTACAG
Seq C2 exon
ATTTATTTATGCATTTAGGTCAAACCCTGAGACAGACAAACTTATTTTCTGCAATGGTGTGGTTTTGCACCGGACGCAGTGCGTACGAAGCTTTGGTGATTGGATTGACTCAATTATGGAGTTCTCTCAGAGTTTACATCGCTTGAATTTGGACATATCTGCTTTTTCCTGTCTTGCCACACTGGTCATAATCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000000796-'5-10,'5-8,6-10=AN
Average complexity
A_C2
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.200 A=0.015 C2=0.000
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=PU(0.5=1.8)
A:
PF0010425=Hormone_recep=FE(33.8=100)
C2:
PF0010425=Hormone_recep=FE(30.3=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:
ACCCAAAGCTGTTCAGGACTC
R:
CCAGTGTGGCAAGACAGGAAA
Band lengths:
300-503
Functional annotations
There are 1 annotated functions for this event
PMID: 22002310
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: alanine scanning, glutathione s tranferase tag, pull down. ELM ID: ELMI002017; ELM sequence: AELSPA; Overlap: FULL
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]