HsaALTD1038236-2/2 @ hg38
Alternative 5'ss
Gene
ENSG00000179058 | C9orf50
Description
chromosome 9 open reading frame 50 [Source:HGNC Symbol;Acc:HGNC:23677]
Coordinates
chr9:129612225-129613251:-
Coord C1 exon
chr9:129613107-129613251
Coord A exon
chr9:129613071-129613106
Coord C2 exon
chr9:129612225-129612454
Length
36 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
GGTCCTCTGTCTCACTCTAGGAG
3' ss Score
10.47
Exon sequences
Seq C1 exon
GTCCACCCAGAAGACACAGGGCTACCTTTCTGAGGACACCTCCATGAACAGCAGCCTGCCCTTCTGTTCATGGAAGAAGGCCGCTGCTCAGAGGCCGCGAAGCAGCCTCCGAGCCTTCTTGGACCCGCACAGAAACCTGGAGCAG
Seq A exon
GTGGGCAAATGGTCTTGCTCCTGGACCTAGAAGCTG
Seq C2 exon
GAGTCCCTCCTGCCCAACCGGGTGCTGCAGTCGGTCCTGAAGCAAGGCTGCCCTAAGGGGTACCATCTCCTCCTGGCCTCCGCAACACTGCAGCCAGATAAGAGGTGAACACTCGCGAACCCAAGGCCAGGGGCACACATGGGCCAGGCAATGAGGAGCGTCCTTCCTTGCCCCACAAATAAAGGCACATCCCAGGTGGCTGGGACCTGCCAGTAGGTGTCACACCACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000179058-8-13,9-13-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.133 A=NA C2=0.029
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
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:
CTTCTTGGACCCGCACAGAAA
R:
GGAGGCCAGGAGGAGATGGTA
Band lengths:
112-148
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains