DreEX6081658 @ danRer10
Exon Skipping
Gene
ENSDARG00000000796 | nr4a1
Description
nuclear receptor subfamily 4, group A, member 1 [Source:ZFIN;Acc:ZDB-GENE-040704-11]
Coordinates
chr23:32228697-32236279:-
Coord C1 exon
chr23:32235950-32236279
Coord A exon
chr23:32228916-32229709
Coord C2 exon
chr23:32228697-32228826
Length
794 bp
Sequences
Splice sites
3' ss Seq
GTTGTGGTTCTGTTCTACAGAAA
3' ss Score
7.5
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
Exon sequences
Seq C1 exon
AAAGGAAGAGCGAATCTGACACAACAGATCAATGGTGCGGCTCCCGGTGCGGTCCACGCATCACACGCGGAAGAATGAAGGAGATTCCGCGGCTACCCTCAGAAATAACAGGCTCGTGAACGAGAAAAAAGGCTTTGATCAGGAAAAAGATCCCAGCTCGTGATAACGGCGGAAAGCAGATGTGAAGCCAGTTCTGAGTAGACAGACAGCGACATGGAAATTGGCAAAAAAGCAACGCGGATGTCAAGAACCACATACATCACCAAAGGATCTCTTGGGGTCAAATGTGCCGAGAACATGTCCAGGACATATTTAACTATATTCAAAGCA
Seq A exon
AAATGACCTGTGTTCAAAGTCAACATGGAGTCCAGTCCTACGAGAGCTCCCTCTTCAGCTCAGAGTTTCTGAATCCTGACTTCACCTCCAGGTTGGCCATGGATGTGACCGAGCAGCGGGAACAGCTCTCTGCGCCCTCCCTACCCAGCATCACTTCTCTGGTTGGGGGATACGTTGGCGAGTTTGACACCTACTCATGCCAGATCGCCACAGGAGCTGCTTCTACCTGTGTGGGCAGCACCTCCGGGCAGCTGGACTCCTTCAAGCTGGATGACCTCCAGGTGTATGGCTGCTACCCGGGCACGTTTGCTTTGAGCTACCTGGACGAGACGCTGTCCTCTTCGGGTGGGTCAAACTGCTTTGGAAGTCCGGCATCTGCACCGTCTCCCTCCACCCCGGGATACCAGCACATGTCTGCATGGGACAGCACCTTTGGTCCCTGCTCTCCTGACGAGGGTTGCTGGGGTTCTGAGAAGCCTCTGAACCAGGCAGCATCTTTCTTCACATTTGGGCACGTCACGGCTGATGAGCTTTCCCCACTGGGACAGATGCAGTCACAGATCCCAGATCAGGATCCCTTTTCTCATACTCCGCAACATGGTTCTCCACTTCCCTTCAGTCCACTCAGCTTAGAGCAGGGCAGCCGGGATGGATCGGGACTGATGGACGGACACTTGTCTCCTAAAGTGAGGAGCCCCACAGGAAATGAGGGACGCTGCGCCGTGTGCGGAGACAATGCTTCTTGTCAGCATTACGGGGTGCGCACTTGTGAAGGATGCAAAGGCTTTTTCAAG
Seq C2 exon
CGCACAGTACAGAAGAACGCCAAATATGTTTGTCTCGCCAACAAAGACTGTCCAGTGGATAAAAGGCGGAGAAACAGATGCCAGTTCTGCCGCTTCCAAAAGTGCCTAGCTGTGGGGATGGTGAAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000000796-'0-5,'0-3,3-5=AN
Average complexity
A_C2
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion (Ref, Alt. ATG (<=10 exons))
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.282 C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
PF0010513=zf-C4=PU(38.6=10.2)
C2:
PF0010513=zf-C4=PD(58.6=93.2)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACACGCGGAAGAATGAAGGA
R:
AACTGGCATCTGTTTCTCCGC
Band lengths:
355-1149
Functional annotations
There are 3 annotated functions for this event
PMID: 22002310
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: alanine scanning. ELM ID: ELMI002018; ELM sequence: SATSPA; Overlap: FULL
PMID: 22002310
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: alanine scanning. ELM ID: ELMI002019; ELM sequence: SAPSPS; Overlap: FULL
PMID: 22002310
Encodes an experimentally validated Eukaryotic Linear Motif (ELM). Method: alanine scanning. ELM ID: ELMI002306; ELM sequence: SPSTPS; Overlap: FULL
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]