HsaINT0068662 @ hg19
Intron Retention
Gene
ENSG00000165702 | GFI1B
Description
growth factor independent 1B transcription repressor [Source:HGNC Symbol;Acc:4238]
Coordinates
chr9:135862046-135862806:+
Coord C1 exon
chr9:135862046-135862165
Coord A exon
chr9:135862166-135862668
Coord C2 exon
chr9:135862669-135862806
Length
503 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
ATGGTCCTATCTCCCCACAGTGC
3' ss Score
11.13
Exon sequences
Seq C1 exon
GTGTGGGGTGCACACTGAAAATGCCACGCTCCTTCCTGGTGAAGAGCAAGAAGGCTCACACCTACCACCAGCCCCGTGTGCAGGAAGATGAACCGCTCTGGCCTCCTGCCCTTACCCCGG
Seq A exon
GTGAGTCAGAGCCCGGGCTGGCGCCTGCTGCACCCACGGGGGGCTCTCTGCTCTGCGTGATGAGGGTGCAGCAGCGTCCCTCCTGCAGCAGCCTCTTCTTCCAAGTCTGGAAACAGGAGTGCAGTAACTGTGGGTTGCAGATGAAAGGAGTAGACAAATGAGTGATGCCCTCATCCCTTCTGCCCTGTTAGGGAGACGAGAGTGTCAGGTTGGAGCCAGTACTTAGTTACTGGCATGTGGGGCCTCACTGGAGGCCCAGTCTAGGGCTGGAGTTGGGTTGCTCAGAAAAACAGACTGGTCCAAAGTCTTCCCCGGGGTCTCCTCCTGGCCTCTTCTTGCCGCCGCCTGCTCTGGGCAGAGCCCGGGAGTGTGAGCCGCCAGAAGCAGCGGCACGTGGCTGTCTCTCTGGGCCTCCTCCTCCTAGGAAGGGCGTGCCCTCCTTGCTCCCTCTGGGCTTCCCAGAAACCGTGGCTATTGATGCTGATGGTCCTATCTCCCCACAG
Seq C2 exon
TGCCCAGAGACCAGGCTCCAAGCAACAGCCCTGTCCTTAGCACTCTATTCCCAAACCAGTGCCTGGACTGGACCAACCTCAAACGAGAGCCGGAGCTGGAGCAGGACCAGAACTTGGCCAGGATGGCCCCGGCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000165702-GFI1B:NM_001135031:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.794 A=NA C2=0.723
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:
GTGTGGGGTGCACACTGAAAA
R:
CCATCCTGGCCAAGTTCTG
Band lengths:
246-749
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
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)