RnoALTD0026606-2/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000002104 | Scaf4
Description
SR-related CTD-associated factor 4 [Source:RGD Symbol;Acc:727896]
Coordinates
chr11:30391935-30393211:-
Coord C1 exon
chr11:30393138-30393211
Coord A exon
chr11:30393126-30393137
Coord C2 exon
chr11:30391935-30392125
Length
12 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACT
5' ss Score
8.63
3' ss Seq
CATCTTTGGAAATATATTAGGTC
3' ss Score
3.43
Exon sequences
Seq C1 exon
GAAATGGAAGTAGAGCAGCCTTGTGTCACAGAGGTTAAGCGGCATGTGCCTGAGAGCAGAAAGTCGAGATCCAG
Seq A exon
GTCAGCATCCAG
Seq C2 exon
GTCACCAAAAAGAAGAAGATCTAGGTCTGGCTCTAGGTCTCGGAGATCCCGCCACCGTCGGTCTCGGTCCCGGTCCAGGGATAGGCGCCGGCACTCGCCTCGCTCTCGCTCTCAAGAAAGACGGGATCGAGAAAAAGAGAGGGAGCGGCGGCAGAAAGGCCTCCCTCAGATCAAGTCAGAGACTGCAAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002104-20-19,21-19-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.636
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
ACAGAGGTTAAGCGGCATGTG
R:
CTCCGAGACCTAGAGCCAGAC
Band lengths:
92-104
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]