HsaALTD0006764-2/4 @ hg38
Alternative 5'ss
Gene
ENSG00000124496 | TRERF1
Description
transcriptional regulating factor 1 [Source:HGNC Symbol;Acc:HGNC:18273]
Coordinates
chr6:42300638-42363079:-
Coord C1 exon
chr6:42362997-42363079
Coord A exon
chr6:42362994-42362996
Coord C2 exon
chr6:42300638-42300749
Length
3 bp
Sequences
Splice sites
5' ss Seq
GTCGCTTCT
5' ss Score
-27.06
3' ss Seq
CCTTTTTCTTTTCCCCACAGGAC
3' ss Score
14.12
Exon sequences
Seq C1 exon
GCCCTGGCTGTGGAGAATGCTGAAGGAAGAAGACGCAGAAGCAGGACGACCCTGAAAGATTCAGCCTCTTCATCCTCAAACAG
Seq A exon
GTC
Seq C2 exon
GACCAGGCCTCCTCTTCCCACCTGTCCAGCAGCATGAAAGCAGCATGATTGGCCGACCGCAGGAGAAGCCCCCAGAACCAGGCCCCCAACTCAGCCATCTGCGGAGGTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000124496-12-12,13-12,14-12,15-12-2/4
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
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:
GGAAGAAGACGCAGAAGCAGG
R:
CTGCTTTCATGCTGCTGGACA
Band lengths:
102-105
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains