HsaINT0073580 @ hg38
Intron Retention
Gene
ENSG00000170627 | GTSF1
Description
gametocyte specific factor 1 [Source:HGNC Symbol;Acc:HGNC:26565]
Coordinates
chr12:54462642-54463297:-
Coord C1 exon
chr12:54463171-54463297
Coord A exon
chr12:54462726-54463170
Coord C2 exon
chr12:54462642-54462725
Length
445 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
3' ss Seq
CAATCTTTATTGTCTTGCAGTCA
3' ss Score
7.87
Exon sequences
Seq C1 exon
AATCATCCTGATGTTGCAAGCAAATTGGCTACTTGTCCCTTCAATGCTCGCCACCAGGTTCCTCGAGCTGAAATTAGTCATCATATCTCAAGCTGTGATGACAGAAGTTGTATTGAGCAAGATGTTG
Seq A exon
GTAAGACTTAGTATCTAAAATATTTCAGTACTGGAGGGTAGCTCCTTCAGATTTGTATTATGCTAGATTGTCAGCTTGATTTTTGGCTTTCAGTGTTTTAGAAGAACAATACTTTTCCACCTTTGAGATTTGTATCATGGCAGCAATAGGTTGTCAGATTGTACATGTCATACTGTTTTCTCTCCTGAACAGCCTGGTTCATTTTACTAATAATTCATCTAAAAATAAATCTTTTATTGCCATAAATATGGTAAACATTTTTGTTTCTGCTTTTCTTTCTTCTGTCAGCAAAGAGATAAGATCCCTCTTTTAGCTTTTATACTATCCATTTTTCAGAAATAAAGACCCAACAGGCTACCCTTGCAACCTTTTAAGCTACTAGCCCCTTTGAACACAATAACTTGGCAATATCCCCCTCTTATATCCAATCTTTATTGTCTTGCAG
Seq C2 exon
TCAACCAAACCAGGAGCCTTAGACAAGAGACTCTGGCTGAGAGCACTTGGCAGTGCCCTCCTTGCGATGAAGACTGGGATAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000170627:ENST00000305879:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.012 A=NA C2=0.086
Domain overlap (PFAM):
C1:
PF052537=zf-U11-48K=WD(100=62.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATCATCCTGATGTTGCAAGCA
R:
TCCCAGTCTTCATCGCAAGGA
Band lengths:
206-651
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