RnoALTA0042068-2/2 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000022598 | Trerf1
Description
transcriptional regulating factor 1 [Source:RGD Symbol;Acc:1307167]
Coordinates
chr9:15661260-15664895:-
Coord C1 exon
chr9:15664692-15664895
Coord A exon
chr9:15661472-15661507
Coord C2 exon
chr9:15661260-15661471
Length
36 bp
Sequences
Splice sites
5' ss Seq
GCTGTAAGT
5' ss Score
8.56
3' ss Seq
AACCCTAATTTCCTTTTCAGGAC
3' ss Score
10.44
Exon sequences
Seq C1 exon
ACCAGCGAAGAGGAAGAGGACGCCGAAGAGGAGGAAGAGGACCCGGAAGAAGATAGGAAATCCATAAAAGATGAGGAGAGTGAAGTACCCAAGACACCAGAGCCACCGCCTGCCCCTGCCCTGGCTCCCACCGAGGGGGCACCCATGCAGGCTGGTGGCCAACCATCAGGCTCCTTCATTTGTGAGATGCCCAACTGTGGGGCT
Seq A exon
GACTGTAGATGTCATGTCGCTCCCTTTCTTCCTCAG
Seq C2 exon
GTGTTCAGCTCCCGACAGGCACTGAATGGCCACGCCCGCATCCATGGCGGCACCAACCAGGTGGCTAAGACCCGAGGTGCTGTCCCCTCTGGGAAGCAGAAGCCAGGTGGCACCCAGAGTGGGTATTGCTCAGTGAAGAGTTCACCATCTCACAGTACCACCAGTGGAGAGACCGACCCCACCACCATCTTCCCCTGCAAGGAGTGTGGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000022598-23-23,23-22-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.853 A=NA C2=0.831
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAACCATCAGGCTCCTTCAT
R:
GGGTCTTAGCCACCTGGTTGG
Band lengths:
119-155
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]