RnoALTA0038113-3/3 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000005472 | Sp4
Description
Sp4 transcription factor [Source:RGD Symbol;Acc:3741]
Coordinates
chr6:146194361-146195284:-
Coord C1 exon
chr6:146195175-146195284
Coord A exon
chr6:146194631-146194664
Coord C2 exon
chr6:146194361-146194630
Length
34 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
TCCCCTCCCATTTTGGGTAGGAC
3' ss Score
7.43
Exon sequences
Seq C1 exon
ATCAGAAGAAGGAGGAGGAGGAGGAGGCGGCAGCGGCAATGGCTACAGAAGGAGGGAAAACCTCTGAGCCAGAGAATAACAATAAAAAACCCAAAACCTCAGGCTCCCAG
Seq A exon
GACTCTCAGCCCTCTCCTCTGGCTTTACTGGCAG
Seq C2 exon
CTACTTGCAGCAAAATAGGGACTCCTGGTGAAAATCAAGCAACTGGACAACAGCAGATTATTATAGATCCAAGCCAAGGATTGGTGCAACTTCAGAATCAACCACAGCAGCTAGAACTGGTGACAACGCAGCTTGCTGGAAACGCTTGGCAACTTGTTGCCTCCACTCCTCCTGCTTCAAAAGAAAATAACGTTTCTCAGCCAGCTTCTAGTTCATCTAGTTCTTCCAGCAGTAATAACGGGAGTTCCTCTCCTACAAAAACTAAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005472-2-4,2-3,2-2-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.525
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTACAGAAGGAGGGAAAACC
R:
TGCTGTTGTCCAGTTGCTTGA
Band lengths:
125-159
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]