HsaEX0066997 @ hg19
Exon Skipping
Gene
ENSG00000124496 | TRERF1
Description
transcriptional regulating factor 1 [Source:HGNC Symbol;Acc:18273]
Coordinates
chr6:42214194-42222664:-
Coord C1 exon
chr6:42222589-42222664
Coord A exon
chr6:42217108-42217233
Coord C2 exon
chr6:42214194-42214282
Length
126 bp
Sequences
Splice sites
3' ss Seq
TTGGGGATCTCTCCTAACAGATG
3' ss Score
8.19
5' ss Seq
CAGGTAATG
5' ss Score
9.43
Exon sequences
Seq C1 exon
GTTGCTCTGGAAATGCTGCTACTGCGGAAGCCTGTCAGGTTAAAATGTCATCCTTTAGCAAATTACCACTATGCCG
Seq A exon
ATGGGCCAGGAAGTTACATCACCAGTGGAGTTGCATCTGGCAAGCAATTTGGAAACATGAAGGGACATGCTTCTCAGAAATCGACAGGCCTGGGAACTGAACACTGCTTTTGGGGCCAGAAATCAG
Seq C2 exon
GTTCGGACAAGTGGACCTCCCTAGAAAGAAAACTGTTTAACAAAGCACTAGCCACTTACAGCAAAGACTTTATTTTTGTACAGAAGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000124496-'18-19,'18-18,19-19
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
Show structural model
Features
Disorder rate (Iupred):
C1=0.000 A=0.070 C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF0024926=Myb_DNA-binding=PU(48.3=93.3)
Other Inclusion Isoforms:
NA
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:
TCTGGAAATGCTGCTACTGCG
R:
CTGTACAAAAATAAAGTCTTTGCTGT
Band lengths:
154-280
Functional annotations
There are 0 annotated functions for this event
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)