HsaEX0006496 @ hg38
Exon Skipping
Gene
ENSG00000115966 | ATF2
Description
activating transcription factor 2 [Source:HGNC Symbol;Acc:HGNC:784]
Coordinates
chr2:175072250-175080765:-
Coord C1 exon
chr2:175080660-175080765
Coord A exon
chr2:175075000-175075087
Coord C2 exon
chr2:175072250-175074835
Length
88 bp
Sequences
Splice sites
3' ss Seq
CTTTCTTTAACACTATTTAGCAA
3' ss Score
4.15
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
Exon sequences
Seq C1 exon
AGTGAAGTCACCCTGCTGAGAAATGAAGTGGCACAGCTGAAACAGCTTCTTCTGGCTCATAAAGATTGCCCTGTAACCGCCATGCAGAAGAAATCTGGCTATCATA
Seq A exon
CAAATATTTCTTCAGCTCTATTCCATAAGGCAGTGGGCACCCAGATGTTTCCATATGCATGGTTGTGCCTTCTTTTGACCTATTGCAG
Seq C2 exon
CTGCTGATAAAGATGATAGTTCAGAAGACATTTCAGTGCCGAGTAGTCCACATACAGAAGCTATACAGCATAGTTCGGTCAGCACATCCAATGGAGTCAGTTCAACCTCCAAGGCAGAAGCTGTAGCCACTTCAGTCCTCACCCAGATGGCGGACCAGAGTACAGAGCCTGCTCTTTCACAGATCGTTATGGCTCCTTCCTCCCAGTCACAGCCCTCAGGAAGTTGATTAAAAACCTGCAGTACAACAGTTTTAGATACTCATTAGTGACTTCAAAGGGAAATCAAGGAAAGACCAGTTTCCATTTATGCGAAATCTGTGGTTGTAAATTTTTTTTTTTTACTTGAAATTAAATTTGGCTCTAAAGTTGGTGTAGCAGCAGTTGATCAGACTGAAAAACGGTTTTTAGTCTCTGGAAAAAGACTGATTTTGCTTTTTTTATAAATATTATTAGATTTATTAATTTTTCTGTGCTCAATGTGTAAATTGTATTATAATTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000115966-'64-61,'64-59,71-61=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
3' UTR
Show PDB structure
Features
Disorder rate (Iupred):
C1=0.568 A=0.000 C2=0.953
Domain overlap (PFAM):
C1:
PF0017016=bZIP_1=PD(26.2=47.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAGATTGCCCTGTAACCGCC
R:
GCTACAGCTTCTGCCTTGGAG
Band lengths:
173-261
Functional annotations
There are 1 annotated functions for this event
PMID: 31911676
[CRISPR screen]. Non-conserved poison exon with negative fitness/survivability impact when depleted: HeLa No Change at 14 days (FC=0.964, FDR=0.974), PC9 Depleted at 14 days (FC=0.780, FDR=0.004), Late Xenograft Depleted (FC=0.657, FDR=0.000).
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development