HsaALTA1021889-4/4 @ hg38
Alternative 3'ss
Gene
ENSG00000124496 | TRERF1
Description
transcriptional regulating factor 1 [Source:HGNC Symbol;Acc:HGNC:18273]
Coordinates
chr6:42263320-42264854:-
Coord C1 exon
chr6:42264704-42264854
Coord A exon
chr6:42263366-42263568
Coord C2 exon
chr6:42263320-42263365
Length
203 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAGC
5' ss Score
4.9
3' ss Seq
AGCCTTTATTGTCTGTGTAGGAG
3' ss Score
6.4
Exon sequences
Seq C1 exon
TGGCCAACCCAAAGGAGCGTTTGGGGAGCAGTTTGATGCCAAGAACAAGCTGACATGCTCCATCTGCCTGAAGGAGTTCAAGAACCTGCCTGCCCTGAATGGCCACATGCGGTCCCACGGGGGAATGAGGGCCTCCCCCAACCTCAAACAG
Seq A exon
GAGGAAGGAGAGAAGGTCCTGCCGCCTCAGCCCCAGCCACCACTGCCGCCTCCGCCTCCGCCTCCGCCGCCACCACAGCTCCCTCCCGAGGCAGAAAGCCTCACGCCTATGGTCATGCCCGTGTCTGTCCCTGTCAAGCTTCTCCCGCCCAAGCCCAGCTCTCAGGGGTTCACCAACAGCACCGTTGCCGCCCCCTCCGCCAG
Seq C2 exon
AGACAAGCCAGCCAGCTCGATGTCGGACGACGAGATGCCTGTGCTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000124496-35-26,35-25,35-24,35-23-4/4
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.662 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF139121=zf-C2H2_6=WD(100=47.1)
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCCAACCCAAAGGAGCG
R:
GAGCACAGGCATCTCGTCG
Band lengths:
196-399
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains