HsaEX0006496 @ hg19
Exon Skipping
Gene
ENSG00000115966 | ATF2
Description
activating transcription factor 2 [Source:HGNC Symbol;Acc:784]
Coordinates
chr2:175936978-175945493:-
Coord C1 exon
chr2:175945388-175945493
Coord A exon
chr2:175939728-175939815
Coord C2 exon
chr2:175936978-175939563
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_MULTIEX1-11/11=10-C2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
3' UTR
Show PDB structure
Features
Disorder rate (Iupred):
C1=0.519 A=0.000 C2=0.981
Domain overlap (PFAM):
C1:
PF0017016=bZIP_1=PD(26.2=47.2)
A:
NO
C2:
NO
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Rat
(rn6)
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
This event
[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
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)