HsaALTA0007115-2/3 @ hg38
Alternative 3'ss
Gene
ENSG00000148300 | REXO4
Description
REX4 homolog, 3'-5' exonuclease [Source:HGNC Symbol;Acc:HGNC:12820]
Coordinates
chr9:133414665-133418096:-
Coord C1 exon
chr9:133417620-133418096
Coord A exon
chr9:133414834-133414957
Coord C2 exon
chr9:133414665-133414833
Length
124 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
AGCCTCTTGTCATCTCTCAGATG
3' ss Score
8.02
Exon sequences
Seq C1 exon
TGCGCGGAACCAGAGGCAGGGATCCGGTTTCCAGCCGGTTGTGGAGAGACGAGCGCTTCCGGGGACTGGAGCGTGCGTGCTGAGGTATGCGCAACGCGTGCGGGGTCTCTTCCGGAGTCTTTTCCTGGACGGGGTCCCTGCGGTGGGTGTGTTTCGGCCTGGCCTGGGCAGGCGCTTGTGCTGCCAGGGCGCCGGGCCCGGGGAGGCCGGGGTCTCGGGTGGCCGCCGGCCCAGGCGCTGGACGGCAGCAGGATGGGGAAGGCGAAGGTCCCCGCCTCCAAGCGCGCCCCGAGCAGCCCCGTGGCTAAGCCGGGTCCTGTCAAGACGCTCACTCGGAAGAAAAACAAGAAGAAAAAAAGGTTTTGGAAAAGCAAGGCGCGGGAAGTAAGCAAGAAGCCAGCAAGCGGCCCCGGTGCTGTGGTGCGACCTCCAAAGGCACCAGAAGACTTTTCTCAAAACTGGAAGGCGCTGCAAGAG
Seq A exon
ATGGGTTCCAAAAAGAAGCCCAAAATTATCCAGCAAAACAAAAAAGAGACCTCGCCTCAAGTGAAGGGAGAGGAGATGCCGGCAGGAAAAGACCAGGAGGCCAGCAGGGGCTCTGTTCCTTCAG
Seq C2 exon
GTTCCAAGATGGACAGGAGGGCGCCAGTACCTCGCACCAAGGCCAGTGGAACAGAGCACAATAAGAAAGGAACCAAGGAAAGGACAAATGGTGATATTGTTCCAGAACGAGGGGACATCGAGCATAAGAAGCGGAAAGCTAAGGAGGCAGCCCCAGCCCCACCCACCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148300-0-4,0-3,0-1-2/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.989 A=NA C2=0.825
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0092919=RNase_T=PU(20.2=40.4)
Main Inclusion Isoform:
NA
Other Inclusion 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:
GGTTTTGGAAAAGCAAGGCGC
R:
TATGCTCGATGTCCCCTCGTT
Band lengths:
245-369
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains