RnoALTA0017512-2/2 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000010981 | Gtf3c5
Description
general transcription factor IIIC subunit 5 [Source:RGD Symbol;Acc:1305173]
Coordinates
chr3:7145722-7146736:-
Coord C1 exon
chr3:7146594-7146736
Coord A exon
chr3:7145884-7145901
Coord C2 exon
chr3:7145722-7145883
Length
18 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGA
5' ss Score
7.54
3' ss Seq
CTTCTTTCCTTCTCGTGCAGCTC
3' ss Score
10.38
Exon sequences
Seq C1 exon
GTTACAGAAAATTGTTCACCGCAATGATGGGACAGAGAGTGTATGCACAGAGAAAGATGGGTGGTGCCTCCCCAAGACCACAGACCACCTGAGAGACACTATGTCACTCATGATTCTACAGACCATCCGCTCTGAGAGGCCTG
Seq A exon
CTCTGTTCTCCAACACAG
Seq C2 exon
GTAAGGCTGATCATGGGAAAGAGCAGCTGATGTTTGAATCTGGAGAGGAGGAGGAGGAGGAGGAAGAAGAGGAGGAGTTCAAGCCCTCAGATGGGAGTGAGAATGAGATGGAAACAGAGATTCTGGATTACGTGTGAGGAAGCACTGCTCCCGGGTGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010981-16-14,16-13-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.143 A=NA C2=0.902
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
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:
ACAGACCATCCGCTCTGAGAG
R:
GAGGGCTTGAACTCCTCCTCT
Band lengths:
114-132
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]