HsaALTD1032812-2/2 @ hg38
Alternative 5'ss
Gene
ENSG00000165643 | SOHLH1
Description
spermatogenesis and oogenesis specific basic helix-loop-helix 1 [Source:HGNC Symbol;Acc:HGNC:27845]
Coordinates
chr9:135693411-135694457:-
Coord C1 exon
chr9:135694387-135694457
Coord A exon
chr9:135693970-135694386
Coord C2 exon
chr9:135693411-135693814
Length
417 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
TGTGTCCTGTTTGCTTCCAGGGT
3' ss Score
11.23
Exon sequences
Seq C1 exon
GTCTGCGTTGGGGTCTGATGTGGACGATGGGACGTCCTTCCTGCTGACTGCTGGTCCCAGCTCGTGGCCGG
Seq A exon
GTGAGTGGGGCCCTGGGTTCAGGGCTGGTCCCCCCGCGTAAGCACCTGATATGAGCTGGGGAATTGGGACTCAGGCCTAGCGTGTGTCAGGGGGCCCCAGGGTCTGTGTCTGAGCCCCCGTTTTCTCCACCGTTGGTGCTTAGCTGTTGGGCCGTGTCTGGTATTGAGCGTTATAGGTGATATGTGAGTGTGTGAGTGAACGTGATGTGGACGAGCCTGCATGAGAGCTGGCGGTGCTTGGAGCCCTGTATTCTTCCCCTTGACCCTGTGTCAGCGAGGCCCCTGGTCCAGCCCGTGCTGGCCGGCAAAGGTGTATGGCCCTGTGACATGGCGTGTGTCCATTCCATTTAGGATTTAGTGTTTGGGAGCCCGTTCCTGGTTCTGGTCCAACAGGTGTCCTGGGTCTGGGGCCACCAG
Seq C2 exon
GGTCTCTGGAGGGTCGAGGAGGCAGTGGCCCTGCATGGGCCCCAGCTGAGAGCAGTCCACTGGATGTTGGAGAGCCAGGCTTCCTAGGGGACCCTGAGCTTGGCTCCCAGGAGCTCCAGGACAGCCCTCTGGAGCCGTGGGGCCTGGATGTGGACTGTGCAGGCCTGGCCCTGAAGGACGAGGTGGAGAGCATCTTCCCTGACTTCTTTGCCTGCTAGCAGCCAGGCTGTGGAGAGGAGGCGGGCGGGGCCGGTGGATCTGGAGCCGTGTGTGTCCCTGTCGCGTGCTTGGGCATTTTATTTTGGGTTTGGGTTGCAGCTGCACCCTAATTTGAGCGAGGCTTACAGGCTGTGAGAAGAGGATAGTGAATATTAAAGAGGGAAAGCAGTTTTCCTGGAGGAAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165643-9-7,10-7-2/2
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=0.740 A=NA C2=0.653
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion 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:
GTCCTTCCTGCTGACTGCTG
R:
AGCTGCAACCCAAACCCAAAA
Band lengths:
358-775
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains