RnoALTD0020433-2/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000005600 | Nr4a2
Description
nuclear receptor subfamily 4, group A, member 2 [Source:RGD Symbol;Acc:3202]
Coordinates
chr3:43113503-43114707:-
Coord C1 exon
chr3:43114619-43114707
Coord A exon
chr3:43114544-43114618
Coord C2 exon
chr3:43113503-43113705
Length
75 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGA
5' ss Score
9.21
3' ss Seq
TTTTTAAAATGAAATTCCAGTTC
3' ss Score
3.59
Exon sequences
Seq C1 exon
TGGTTCGCACGGACAGTTTAAAAGGCCGGAGAGGTCGTCTACCCTCAAAACCGAAGAGCCCACAGGATCCCTCTCCCCCCTCACCTCCG
Seq A exon
GTGAGTCTGATCAGTGCCCTCGTCAGAGCCCACGTCGACTCCAATCCGGCAATGACCAGCCTGGACTATTCCAGG
Seq C2 exon
TTCCAGGCAAACCCTGACTATCAGATGAGTGGAGATGATACTCAACATATCCAGCAGTTCTACGATCTCCTGACTGGCTCTATGGAGATCATCAGAGGGTGGGCAGAGAAGATTCCTGGCTTTGCTGACCTGCCCAAAGCCGATCAGGACCTGCTTTTTGAATCAGCTTTCTTAGAATTATTTGTTCTACGCTTAGCATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005600-10-9,11-9-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.473 A=NA C2=0.022
Domain overlap (PFAM):
C1:
PF0010425=Hormone_recep=PU(0.5=1.8)
A:
NA
C2:
PF0010425=Hormone_recep=FE(33.8=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAAAACCGAAGAGCCCACAG
R:
CAGGTCAGCAAAGCCAGGAAT
Band lengths:
177-252
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]