HsaALTA0008954-2/2 @ hg38
Alternative 3'ss
Gene
ENSG00000124496 | TRERF1
Description
transcriptional regulating factor 1 [Source:HGNC Symbol;Acc:HGNC:18273]
Coordinates
chr6:42264704-42265797:-
Coord C1 exon
chr6:42265751-42265797
Coord A exon
chr6:42264855-42264857
Coord C2 exon
chr6:42264704-42264854
Length
3 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
3' ss Seq
CATTTGACTCTTCCCTTGAGCAG
3' ss Score
-1.45
Exon sequences
Seq C1 exon
ATGCACCTACCTGATGGGAGAGCCCAGCCAGGGTCCCCTGAGTCAAG
Seq A exon
CAG
Seq C2 exon
TGGCCAACCCAAAGGAGCGTTTGGGGAGCAGTTTGATGCCAAGAACAAGCTGACATGCTCCATCTGCCTGAAGGAGTTCAAGAACCTGCCTGCCCTGAATGGCCACATGCGGTCCCACGGGGGAATGAGGGCCTCCCCCAACCTCAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000124496-34-22,34-21-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.662
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF139121=zf-C2H2_6=WD(100=47.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
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:
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