HsaINT0068655 @ hg38
Intron Retention
Gene
ENSG00000162676 | GFI1
Description
growth factor independent 1 transcriptional repressor [Source:HGNC Symbol;Acc:HGNC:4237]
Coordinates
chr1:92482864-92483586:-
Coord C1 exon
chr1:92483373-92483586
Coord A exon
chr1:92483047-92483372
Coord C2 exon
chr1:92482864-92483046
Length
326 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGA
5' ss Score
7.75
3' ss Seq
CACCTGCCTCCTCTTTGCAGACA
3' ss Score
11.09
Exon sequences
Seq C1 exon
GTCTCCTCCGGGCTGGGGCTGAGCAAGCCCTCGGAGTGACCGTGGGTGACAGCGGCTCCAGGGACTCTTGGGGCGCAGTGGGGAAAGTGCCGGACCACCATGCCGCGCTCATTTCTCGTCAAAAGCAAGAAGGCTCACAGCTACCACCAGCCGCGCTCCCCAGGACCAGACTATTCCCTCCGTTTAGAGAATGTACCGGCGCCTAGCCGAGCAG
Seq A exon
GTGCGAGGCGCGCGCGGGCCAGGCGGGGCTGCTCCCCCGGATGCCTACTGCACCTCGGCACACCATTAGTCCGGAGCTGGGAGGGGCTGCCCCAACGTCCCTTTTGCTGCTGTTTTTGTTTCCTACTGTCCTGGTTCCTCCGGGTTTGTCTCCTAGGTGCCATGGCCTCTCTGCGCCTGCCCTCGGATCCGAGAGGGTTCCCGGCCGGGGTCTGGGTGGAGAGGGGAAGACGCTCGGCTGCCCTGGTCGGGGGATTGGGGGAGCCTTCAGCACCCTCAGACTCAACCGGTCCCAGCCTGAGCCCCTCACCTGCCTCCTCTTTGCAG
Seq C2 exon
ACAGCACTTCAAATGCAGGCGGGGCGAAGGCGGAGCCCCGGGACCGTTTGTCCCCCGAATCGCAGCTGACCGAAGCCCCAGACAGAGCCTCCGCATCCCCAGACAGCTGCGAAGGCAGCGTCTGCGAACGGAGCTCGGAGTTTGAGGACTTCTGGAGGCCCCCGTCACCCTCCGCGTCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162676:ENST00000370332:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.974 A=NA C2=0.887
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGAGCAAGCCCTCGGAGT
R:
CTCAAACTCCGAGCTCCGTTC
Band lengths:
342-668
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development