DreALTA0018785-2/2 @ danRer10
Alternative 3'ss
Gene
ENSDARG00000055854 | nr4a3
Description
nuclear receptor subfamily 4, group A, member 3 [Source:ZFIN;Acc:ZDB-GENE-070824-4]
Coordinates
chr16:27406359-27411170:+
Coord C1 exon
chr16:27406359-27406440
Coord A exon
chr16:27410755-27410757
Coord C2 exon
chr16:27410758-27411170
Length
3 bp
Sequences
Splice sites
5' ss Seq
GAGGTTAGA
5' ss Score
4.15
3' ss Seq
ATTCTCTCTCCCCATCTCAGTAG
3' ss Score
6.06
Exon sequences
Seq C1 exon
ATCTATGGCACTCTGACAATGAACAAGCGATCACAGTTATTGGAACAGCTGCATTTTGTCCATCTAAAATGCACACCTCGAG
Seq A exon
TAG
Seq C2 exon
ACATGCCCTGCGTTCAGGCCCAGTACGGCCCTCCACCCCATGGGTCCAGCTACTCTGCCCAGTCCTTTGGCTACCATGGTGACTACAGCGCTGACCTCATGGCGACAGACTACACAAAGTGTGAGCTCAGTGGGGGAGAGATCTCAGCGGCGGCCGCCACCACTTCCTTACCCAGTTTTAATGTGTTTGTGGAGGGCGGCTTCGAGCCCAAACCTTCCTGTCTGTATCAACTCCCTCCTCAACGCCCTATCATCAAGAAAGAGGAGGAGTCCTTCCCACCCATGGCACCATCTGACGAAGCAATACCTGGGAGCTCCATGTACTTTAAACAGTCGCCCCCTTCGACGCCCCCTACGCCGCTTCACCCCGGCCCACCCAGCAGCTCTTTCTTGTGGGATGAGCACAGTCTTCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000055854-5-3,5-2-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.071 A=NA C2=0.500
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0010513=zf-C4=PU(38.6=9.6)
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAACAGCTGCATTTTGTCCA
R:
CAGAGTAGCTGGACCCATGGG
Band lengths:
99-102
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]