RnoALTA0042070-2/2 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000022598 | Trerf1
Description
transcriptional regulating factor 1 [Source:RGD Symbol;Acc:1307167]
Coordinates
chr9:15693996-15695868:-
Coord C1 exon
chr9:15695718-15695868
Coord A exon
chr9:15694107-15694262
Coord C2 exon
chr9:15693996-15694106
Length
156 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGC
5' ss Score
7.16
3' ss Seq
ACCCTTTATTGTCTGTGTAGGAG
3' ss Score
8.41
Exon sequences
Seq C1 exon
CGGCCAAACCAAAGGAGTGTTTGGGGAACAGTTTGATGCCAAGAACAAGCTGACATGCTCCATCTGCCTGAAGGAGTTCAAAAGCCTGCCTGCCCTGAATGGCCACATGAGGTCCCACGGGGGAATGAGGGCATCCCCCAGCCTCAAACAG
Seq A exon
GAGGAAGGAGAGAAGGTCCCACCGCCTCAGCCTCAGCCTCAGCCTCAGCCTCAGCCTCAGCCCCAGCCGCCACTGCCGCCTCAGCCGCCACCGCAGCTCCCTCCTGAGGCAGAGCGCCTCACGCCTATGGTCATGCCCGTGTCTGTCCCTGTCAAG
Seq C2 exon
CTTCTCCCACCCAAGCCCAGCTCTCAGGGGTTCACCAACAGCGTCGCTGCCACCCCTTCGGCCAGAGACAAGCCAGCCAGCTCGATGTCGGACGACGAGATGCCTGTGCTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000022598-8-9,8-8-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.627 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF139121=zf-C2H2_6=WD(100=47.1)
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
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:
CGGCCAAACCAAAGGAGTGTT
R:
ATCTCGTCGTCCGACATCGAG
Band lengths:
252-408
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]