RnoEX0090091 @ rn6
Exon Skipping
Gene
ENSRNOG00000011241 | Tfdp2
Description
transcription factor Dp-2 [Source:RGD Symbol;Acc:1305814]
Coordinates
chr8:104128475-104152499:+
Coord C1 exon
chr8:104128475-104128578
Coord A exon
chr8:104148464-104148511
Coord C2 exon
chr8:104152337-104152499
Length
48 bp
Sequences
Splice sites
3' ss Seq
CTGTCTTTTTGTCTTTTTAGTGA
3' ss Score
10.67
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
Exon sequences
Seq C1 exon
GTAACATTTCACTTGTGGCCTTTCCAGTTTCAAGCACCAACTCACCAACAAAGATTTTACCGAAAACCTTAGGGCCAGTAAATGTGAATGTTGGACCCCAAATG
Seq A exon
TGATAGAAAACGAGCTAGAGAATTTATAGACTCCGATTTTTCAGAAAG
Seq C2 exon
TAAACGAAGCAAAAAAGGGGACAAAAATGGGAAAGGCTTGAGACATTTTTCAATGAAGGTGTGTGAGAAAGTTCAACGGAAAGGCACAACATCATACAATGAAGTAGCTGATGAACTGGTGTCTGAGTTTACCAATGCGAGTAACCATCTGGCAGCTGACTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000011241_MULTIEX4-4/6=C1-5
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.354 A=0.529 C2=0.270
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF0231915=E2F_TDP=PU(56.1=83.6)
Main Skipping Isoform:
ENSRNOT00000081204fB15029
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCGAAAACCTTAGGGCCAGT
R:
TGATGTTGTGCCTTTCCGTTGA
Band lengths:
140-188
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]