RnoALTD0020426-2/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000010308 | Nr2f2
Description
nuclear receptor subfamily 2, group F, member 2 [Source:RGD Symbol;Acc:69305]
Coordinates
chr1:131451933-131454689:-
Coord C1 exon
chr1:131454064-131454689
Coord A exon
chr1:131453990-131454063
Coord C2 exon
chr1:131451933-131452460
Length
74 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGG
5' ss Score
9.08
3' ss Seq
TGTCTCCTTTCCTCCTGCAGCTG
3' ss Score
13.08
Exon sequences
Seq C1 exon
CCACCCCGCCGCCGCCCGCAGCCAGGGGAGCAGAAGTCCGGACGCGGCCCCCATAGATATGGCAATGGTAGTCAGCACGTGGCGCGACCCCCAGGACGAGGTGCCCGGCTCTCAGGGCAGCCAGGCCTCGCAGGCGCCGCCCGTGCCGGGCCCGCCGCCTGGCGCCCCGCACACGCCACAGACGCCGGGCCAAGGGGGCCCGGCCAGCACGCCGGCCCAGACAGCGGCTGGCAGCCAGGGCGGCCCTGGCGGCCCAGGCAGCGACAAACAGCAGCAGCAGCAGCACATCGAGTGCGTGGTGTGCGGGGACAAGTCGAGCGGCAAGCACTACGGCCAGTTCACGTGCGAGGGCTGCAAGAGCTTCTTCAAGCGCAGCGTGCGGAGGAACCTGAGCTACACGTGCCGCGCCAACCGGAACTGTCCCATCGACCAGCACCACCGCAACCAGTGCCAGTACTGCCGCCTCAAAAAGTGCCTCAAAGTGGGCATGAGACGGGAAG
Seq A exon
GTATCGGCTTCTCATTTCTTCCCCCTTCGCCCGTGGTCCCGGGGCCCTGGGTGCGTTTGGCTAGCCTGCTCTGG
Seq C2 exon
CTGTACAGAGGGGCAGGATGCCGCCCACCCAGCCTACTCACGGGCAGTTTGCACTGACCAACGGGGACCCCCTCAACTGCCACTCGTACCTGTCCGGATATATTTCCCTGCTGCTGCGCGCGGAGCCCTACCCCACGTCGCGCTTCGGCAGTCAGTGCATGCAGCCTAACAACATCATGGGCATCGAGAACATTTGCGAACTGGCCGCACGGATGCTCTTCAGCGCCGTTGAGTGGGCCCGGAACATCCCCTTCTTCCCTGACCTGCAGATCACGGACCAGGTGGCCCTCCTTCGCCTCACCTGGAGCGAGCTGTTCGTGTTGAATGCAGCACAGTGCTCCATGCCCCTCCATGTTGCCCCGCTCCTTGCCGCTGCTGGCCTGCACGCTTCACCCATGTCAGCCGACCGGGTGGTCGCCTTTATGGACCACATACGGATCTTCCAAGAGCAAGTGGAGAAGCTCAAGGCACTGCACGTCGACTCCGCCGAGTACAGCTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010308-1-3,2-3-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.541 A=NA C2=0.066
Domain overlap (PFAM):
C1:
PF0010513=zf-C4=WD(100=47.3)
A:
NA
C2:
PF0010425=Hormone_recep=PU(67.3=74.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGGAACCTGAGCTACACGT
R:
GTGCAAACTGCCCGTGAGTAG
Band lengths:
174-248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]