GgaEX1058183 @ galGal3
Exon Skipping
Gene
ENSGALG00000002753 | F1N8A4_CHICK
Description
NA
Coordinates
chr9:11438190-11442084:-
Coord C1 exon
chr9:11441963-11442084
Coord A exon
chr9:11439873-11439920
Coord C2 exon
chr9:11438190-11438352
Length
48 bp
Sequences
Splice sites
3' ss Seq
ACATAATTGTCTTCTCCTAGGGA
3' ss Score
8.27
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
Exon sequences
Seq C1 exon
ATAATAAGCACATCACAAAGACTGACCAATTCAGGGGGTGTTCTGATTGGAAGTCCGTATAACCCAGCTCCAACGATGGTGACGCAGACACACATAACAGAAGCTACTGGCTGGATTCCAGG
Seq A exon
GGAAAGGAAGCGAACTCGAGAATTTATAGAATCGGATTTTTCAGAAAG
Seq C2 exon
TAAAAGAAGCAAAAAAGGAGACAAAAATGGGAAAGGTCTGAGGCATTTCTCCATGAAAGTATGTGAAAAAGTTCAACGTAAAGGAACAACTTCATACAATGAAGTTGCTGATGAGCTGGTATCAGAATTCACAAATTCCAACAGCCACCTAGCTGCGGATTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002753-'10-10,'10-8,11-10=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.585 A=0.588 C2=0.382
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF0231915=E2F_TDP=PU(56.1=83.6)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGGGGGTGTTCTGATTGGA
R:
TGCCTCAGACCTTTCCCATTT
Band lengths:
137-185
Functional annotations
There are 2 annotated functions for this event
PMID: 8923205
Nuclear location when included and cytosolic when skipped. This forms heterodimer with E2F1 and translocates it to the nucleus.
PMID: 31771184
Overexpression of two splice isoforms of E2F dimerization partner 2 (Tfdp2) isoforms, splicing of which is regulated by Nova2, in HeLa cells show that the presence/absence of cassette exon HsaEX0064639 affects subcellular localization (absence of exon shifts the localization from exclusively nuclear to both nuclues and cytosol), interaction with E2F1 (absence of exon reduces interaction), and expression of Dll4 mRNA (E2F1 has known binding sites in the Dll4 promoter), with the isoform containing the exon leading to higher expression of Dll4 mRNA than the isoform without it.
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]