RnoALTD0013232-1/6 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000010981 | Gtf3c5
Description
general transcription factor IIIC subunit 5 [Source:RGD Symbol;Acc:1305173]
Coordinates
chr3:7161135-7164368:-
Coord C1 exon
chr3:7164268-7164368
Coord A exon
NA
Coord C2 exon
chr3:7161135-7161354
Length
0 bp
Sequences
Splice sites
5' ss Seq
CGAGTAAGG
5' ss Score
6.93
3' ss Seq
CTCCCTGGGCATTGCCACAGATC
3' ss Score
6.13
Exon sequences
Seq C1 exon
TGCGGCGAGAACGGCGACTGGTGTGCGTGGAGTACCCGGGCGTGGTGCAAAACGAAGATAAGATGCTACAGACTCTGGGCGGCGAGGAAGGCGTCTCTCGA
Seq A exon
NA
Seq C2 exon
ATCTACACTGACCCCACCAAGAGGCTGGAGCTCTACTTCCGGCCCAAGGACCCATACTGCCATCCAGTGTGTGCTAACCGCTTCAGTACCAGTAGCCTGCTGCTCCGAGTCCGGAAAAGAACAAGGCGTCGCAGAGGTGTCCCGGGAGACGAGGCCCACCCCCACGTCACGTTCGATCTGGAAATCCTTGGCACCATCTCCACAATTTACAAATTCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010981-0-0,1-0,2-0,3-0,4-0,5-0-1/6
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.235 A=NA C2=0.108
Domain overlap (PFAM):
C1:
PF097344=Tau95=PU(9.3=54.9)
A:
NA
C2:
PF097344=Tau95=FE(24.3=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
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:
AGATGCTACAGACTCTGGGCG
R:
ATTGTGGAGATGGTGCCAAGG
Band lengths:
247-352
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]