HsaINT0156589 @ hg19
Intron Retention
Gene
ENSG00000165643 | SOHLH1
Description
spermatogenesis and oogenesis specific basic helix-loop-helix 1 [Source:HGNC Symbol;Acc:27845]
Coordinates
chr9:138585255-138586303:-
Coord C1 exon
chr9:138586233-138586303
Coord A exon
chr9:138585661-138586232
Coord C2 exon
chr9:138585255-138585660
Length
572 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
TGTGTCCTGTTTGCTTCCAGGGT
3' ss Score
11.23
Exon sequences
Seq C1 exon
GTCTGCGTTGGGGTCTGATGTGGACGATGGGACGTCCTTCCTGCTGACTGCTGGTCCCAGCTCGTGGCCGG
Seq A exon
GTGAGTGGGGCCCTGGGTTCAGGGCTGGTCCCCCCGCGTAAGCACCTGATATGAGCTGGGGAATTGGGACTCAGGCCTAGCGTGTGTCAGGGGGCCCCAGGGTCTGTGTCTGAGCCCCCGTTTTCTCCACCGTTGGTGCTTAGCTGTTGGGCCGTGTCTGGTATTGAGCGTTATAGGTGATATGTGAGTGTGTGAGTGAACGTGATGTGGACGAGCCTGCATGAGAGCTGGCGGTGCTTGGAGCCCTGTATTCTTCCCCTTGACCCTGTGTCAGCGAGGCCCCTGGTCCAGCCCGTGCTGGCCGGCAAAGGTGTATGGCCCTGTGACATGGCGTGTGTCCATTCCATTTAGGATTTAGTGTTTGGGAGCCCGTTCCTGGTTCTGGTCCAACAGGTGTCCTGGGTCTGGGGCCACCAGGTATGAGCTCACCCACCTCATCACAGCCTCTGTGCAGCGGGGACAGGGCAGGGCAGACGGACTGAGGTGGGAGCTCTGTTCCTCCGACCCCACCTGTCTGCCTCAAGCTCCCAGAGCACCTGCCTGCCCTGCCGATGTGTCCTGTTTGCTTCCAG
Seq C2 exon
GGTCTCTGGAGGGTCGAGGAGGCAGTGGCCCTGCATGGGCCCCAGCTGAGAGCAGTCCACTGGATGTTGGAGAGCCAGGCTTCCTAGGGGACCCTGAGCTTGGCTCCCAGGAGCTCCAGGACAGCCCTCTGGAGCCGTGGGGCCTGGATGTGGACTGTGCAGGCCTGGCCCTGAAGGACGAGGTGGAGAGCATCTTCCCTGACTTCTTTGCCTGCTAGCAGCCAGGCTGTGGAGAGGAGGCGGGCGGGGCCGGTGGATCTGGAGCCGTGTGTGTCCCTGTCGCGTGCTTGGGCATTTTATTTTGGGTTTGGGTTGCAGCTGCACCCTAATTTGAGCGAGGCTTACAGGCTGTGAGAAGAGGATAGTGAATATTAAAGAGGGAAAGCAGTTTTCCTGGAGGAAGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165643-SOHLH1:NM_001101677:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.727 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
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:
358-930
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)