HsaINT0068654 @ hg38
Intron Retention
Gene
ENSG00000162676 | GFI1
Description
growth factor independent 1 transcriptional repressor [Source:HGNC Symbol;Acc:HGNC:4237]
Coordinates
chr1:92483373-92483954:-
Coord C1 exon
chr1:92483735-92483954
Coord A exon
chr1:92483587-92483734
Coord C2 exon
chr1:92483373-92483586
Length
148 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGC
5' ss Score
8.69
3' ss Seq
TGGTTTTCTTTCCCTCTCAGGTC
3' ss Score
11.68
Exon sequences
Seq C1 exon
AGCTGAGTTGGGGTAACCCACCCGATGGGAACTACAGCTCTCCAGGGAGTTTGATTGCCGGAGCGAGCTTCGCTAGGAAAGGGGAGGAGCTGGGGGGCGTGGGCAGGGAGGAGGAAAGGGGCCTGAGACAGGGCCCCGGGACAGGTTTTACCGCTGAGCTGTGTCAGTGGCGGCGGCGGCAACGACGGCGGGTTCGCGCCACCTGTCCAAGTGCCACCTG
Seq A exon
GTAAGCGCGGCGCAGCAGGGTCAAGCCCCTCCTCCCGTGGGCCCTCTGCGCGCCTCCCTGGCCCGCGCTCTCCCTCCGCCTGGGTGCCCAGTCCGCCGCACCGGAGAGTACTGACCCACGTCTCCACCTGGTTTTCTTTCCCTCTCAG
Seq C2 exon
GTCTCCTCCGGGCTGGGGCTGAGCAAGCCCTCGGAGTGACCGTGGGTGACAGCGGCTCCAGGGACTCTTGGGGCGCAGTGGGGAAAGTGCCGGACCACCATGCCGCGCTCATTTCTCGTCAAAAGCAAGAAGGCTCACAGCTACCACCAGCCGCGCTCCCCAGGACCAGACTATTCCCTCCGTTTAGAGAATGTACCGGCGCCTAGCCGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162676:ENST00000370332:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.974
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
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:
AGGTTTTACCGCTGAGCTGTG
R:
GGGAATAGTCTGGTCCTGGGG
Band lengths:
256-404
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