DreEX0078401 @ danRer10
Exon Skipping
Gene
ENSDARG00000042835 | tfdp2
Description
transcription factor Dp-2 [Source:ZFIN;Acc:ZDB-GENE-030219-104]
Coordinates
chr15:4453925-4475863:-
Coord C1 exon
chr15:4475733-4475863
Coord A exon
chr15:4474002-4474049
Coord C2 exon
chr15:4453925-4454087
Length
48 bp
Sequences
Splice sites
3' ss Seq
CTGCAGCCTTCTCTTTATAGGAA
3' ss Score
9.03
5' ss Seq
CAGGTGGGC
5' ss Score
8.07
Exon sequences
Seq C1 exon
ATTTTAAGCACACCACAGAGAGTCTCTCACTCTGGAAATATCCTCATCGGCAGCCCGTTTACGCCCCACACAACGCCGGTTGCCATGGTTACTCAGGCACACCCACCCGAAGGCAACGAGTGGACCCCGGG
Seq A exon
GAACAAAAAAAGGACGCACGACTACATCGACTCCTATTACTCAGACAG
Seq C2 exon
TAAGAGATTGAAAAGGGCGGATAAGAATGGTAAAGGCCTGCGGCATTTCTCCATGAAGGTGTGCGAGAAGGTCCAGAAGAAAGGCACTACGTCGTACAACGAGGTGGCAGATGAGCTGGTAGCCGAGTTCACACACGCCAGCAGTCTGATGCCTGCAGACTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000042835_MULTIEX1-6/10=5-8
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.648 A=0.228 C2=0.224
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF0231915=E2F_TDP=PU(56.1=83.6)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTGCCATGGTTACTCAGGCA
R:
CTTCTGGACCTTCTCGCACAC
Band lengths:
132-180
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]