HsaINT0025390 @ hg38
Intron Retention
Gene
ENSG00000197768 | STPG3
Description
sperm-tail PG-rich repeat containing 3 [Source:HGNC Symbol;Acc:HGNC:37285]
Coordinates
chr9:137251261-137251895:+
Coord C1 exon
chr9:137251261-137251396
Coord A exon
chr9:137251397-137251737
Coord C2 exon
chr9:137251738-137251895
Length
341 bp
Sequences
Splice sites
5' ss Seq
CCAGTAACT
5' ss Score
1.17
3' ss Seq
GCTGCTGGTCTCCCTTGCAGGCC
3' ss Score
10.05
Exon sequences
Seq C1 exon
TTGGGGAAGAGAGCCAGGAGACTCTGATGATGAATTCTGACCAGAAGGCAGTGAAATTCCTGGCAAATTTTTACATCAATGGAGGCAAACACTGGACCCATGGTCACCTGAGGCAGACACAACCAGAGCCCACCCA
Seq A exon
GTAACTGGCGGAGAGGGGGAGAAGGGGCGGGCCAGCTGGGAGTGGCCAGGGGGCTGAGGGACAGTGTGGGGGGCAGGTTGCTGGGCAGGCGGCTGGGGGACTGAGGGACAGTGTGGGGACAGGCTGTGGGGCAGGCGGCTGGGAGCGGCCAGGGGCTGAGGGACAGTAGAGGGGACAGGCGGCTGGGAGCGGCCAGGGGCTGAGGGACAGTGTGGGGACAGGCTGTGGGGCACGTGGCTGGGAGCAGCCGGGGGCTGAGGGACAATAGAGGGGACAGGCTGTGGGGCATGTGGCTGGGAGCGGCCGGGGGCTGAGACAGTGGCTGCTGGTCTCCCTTGCAG
Seq C2 exon
GCCCAAGGCATCTGTGCTGTTGTTGGGCCCGGAGCCGGGGATGGCCTGGGATGAGACACAGCCCCCAAAGATGAAGGAGATCCCAGTTGGCCTCAGGTTACAGACGGGCACCCCCCAGGAGTCCCTGCCCACCTACACCCAGACCCTGAGGGAACTAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197768:ENST00000388931:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.416 A=NA C2=0.936
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGGGGAAGAGAGCCAGGAG
R:
ATAGTTCCCTCAGGGTCTGGG
Band lengths:
294-635
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
- Pre-implantation embryo development