HsaALTA0008954-1/2 @ hg19
Alternative 3'ss
Gene
ENSG00000124496 | TRERF1
Description
transcriptional regulating factor 1 [Source:HGNC Symbol;Acc:18273]
Coordinates
chr6:42232442-42233535:-
Coord C1 exon
chr6:42233489-42233535
Coord A exon
NA
Coord C2 exon
chr6:42232442-42232592
Length
0 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
3' ss Seq
TTGACTCTTCCCTTGAGCAGTGG
3' ss Score
4.9
Exon sequences
Seq C1 exon
ATGCACCTACCTGATGGGAGAGCCCAGCCAGGGTCCCCTGAGTCAAG
Seq A exon
NA
Seq C2 exon
TGGCCAACCCAAAGGAGCGTTTGGGGAGCAGTTTGATGCCAAGAACAAGCTGACATGCTCCATCTGCCTGAAGGAGTTCAAGAACCTGCCTGCCCTGAATGGCCACATGCGGTCCCACGGGGGAATGAGGGCCTCCCCCAACCTCAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000124496-11-11,11-10-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.660
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF139121=zf-C2H2_6=WD(100=47.1)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGCACCTACCTGATGGGAG
R:
GCATGTCAGCTTGTTCTTGGC
Band lengths:
105-108
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)