HsaINT0068654 @ hg19
Intron Retention
Gene
ENSG00000162676 | GFI1
Description
growth factor independent 1 transcription repressor [Source:HGNC Symbol;Acc:4237]
Coordinates
chr1:92948930-92951628:-
Coord C1 exon
chr1:92951571-92951628
Coord A exon
chr1:92949144-92951570
Coord C2 exon
chr1:92948930-92949143
Length
2427 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
TGGTTTTCTTTCCCTCTCAGGTC
3' ss Score
11.68
Exon sequences
Seq C1 exon
AAAGCAAGATTCCGTTTGAAAACTCTCCTAGCGCGGTGCCCGCGCCGTGACTCCGCAG
Seq A exon
GTAGGTCCGCCGAGCCTGTTCTGCGCCTCCTGCCCTGGTGGGGGCGGCCGCGGGGACTCGCAGAGCACTGGCACTGCGGGGGCGATCAGAGGGCGCGGGCGGTTTCCCACCTGCTGCGGACCGCCGTGCGGGAGCCCAGAGAGCTCCGGCAGCTGGGTTAGGGCGCGACCCGCGCAGTGTGACTGGAAATCTGGAGCTGGGGGCGCGCAGCAGGCGGTCTGGTGGTTCGGCAGGGGAGCCAAATCCACCAGGGAAGGAAACATCTGGTGGGGAGGCGGCGGCAGCTGCGCTCGGGAGGACGCCCCCTTAGCGCCCTCGGCTCCCTCCTTCCTGGGCCCGGACGGTGAGGAGAGGCCTGAGCGCGCGGAGGGGCCGCCCCACCTCCCGCGCCAGCTGCAGCGCGGGGTTGCCTTCCCACGCGCTCGGCCCAGGCCCCGGGGCCCCTATCTCCTCCAAACTCTGTCGCTCCCCACAGGAACCAGCAAAGCGGGCCGGGGTGCGAGAGAGGCGTGGGCTTACAGCCCGGGTGGGGAGGCGGCCTCCGCGTCCGCCTGGTCTCTGGTGGCGCCAGCCCAGACCCAGCTCCGGCGCTGACAGTTACCCCGCCCCCATCTGTCCCGCTCCCAGCCAACGTGGGTCCAAGCTGCAGCGGGACCCTCGGGACAACGCCACTCCGTTTTTCTTTTCTTCCGAGTTTCGTGGCTGTTTAAAGAATTGGGTTTGGGGTTTGTGGCGTCTAATTGTACGGACGAGAAGTGCAGGAAGCGACAAAGCTCTAGCCCTAGGAGCCACCCCGGAGGGAGGCGGATGGCACTCTCACCCCTAGGGGCATTCTGGCGCTTGGGTAGCGGGAAACTTCGCGGGAGCCCCGCGACACGTCCCAGGCGTCTTTTCTCCCAGGTCTATTCCCATTCCTCCGGAGAAGGGGACACAATGGGGCTGGGGATCTGGAGCAGGGGGCCTGCACCCTACAGGGACCAAGGCCTGTAGGACTCGTTTGAGCTGAGAGCGCCAACGGACAGACGTAGACTGTGTGGCCTGCATCTTGCCTAGGAAGCCGAGGGGCTCCTAGTCCGGCAGTGGAAACAGCGCGAAGCCGGAGGACTGCAGGTCCTGCCCCGGCCCAGAGTTCCCAGCACCCTCGTTTCTGAACCAGCCGAGGCCACGGAGAACTGCTGTACTGCAGCTCACGTGTGAACCCGGTCACCATCGCCTTCACCCCGGGAGGAAGGCAGATTCGTTTACTCCAGACCACCTCGACTGTGGGGTACCGCCCCCGGAGCCGGCTGGAGCCTAGCGGCAGGCGCAGCCACGCCCTCCCGCTGCGCTCAGATTTCGACCTGGTATTAGGTGAACTGATTGGGGGTTAATGAGAGCGACGCCCCGGGCAGCTAGTTCCCTCCCGGGCCCGGGCCCGACCCCCGCTCTCTGCTAATGCAGCCTGCGCGCTCTGGCGTCCTGTCTTTTTTGTCTGCTAAATTGTCGGTGCACTACCGACTCGGGACACCTAGCATTTCCCAGTCAACGTTCGTGGATCGGGCTCCACCTCCCTAGGACAAGATTTTTTGGTGAGCAGAACGGAAAGTGCTTTTTTCCCGGGACCTGATTCCCGAGGTTAGGTCTCCATGGTCTGGGATGGCTCGCCGCAGCCTCGACCGGTGCCCGCCGCAGCCGGGAGTCCAAGGGCAAAGTTTCTCCTACGTGGGGCACTAGTGAGGGGCGAGTGGGATCACCCAGATGCGAGTTTCTCCTGGGGCGGGGGTTGGTCGTCTGTTGTTCCCCTCACTTTCCTGTCCCTTTGCTCTCCCACCTCCTTTCTCTGGCCTCTGCTGTCCCCAATCCCTCTGCTGCTGTCCTCCCGCCGCCCCACAGTTTTATCTTGTGTTCTGTTCCCCCCTCCCCCCGGTCCTTTCACTCCAGTTGGTAGCTGGCTCTTGGAGGTCTTGGCTCCTTGCCCCTTCCGGGTCCTCGACCACTGGGCATCCCCGGCCCCTAAACCGATCCGCGTGTCCCCGCCCTCCCTCGCCAGCCGTAAAGCACAGCCAGGCAGGCGATGAGTAGCTGAGTTGGGGTAACCCACCCGATGGGAACTACAGCTCTCCAGGGAGTTTGATTGCCGGAGCGAGCTTCGCTAGGAAAGGGGAGGAGCTGGGGGGCGTGGGCAGGGAGGAGGAAAGGGGCCTGAGACAGGGCCCCGGGACAGGTTTTACCGCTGAGCTGTGTCAGTGGCGGCGGCGGCAACGACGGCGGGTTCGCGCCACCTGTCCAAGTGCCACCTGGTAAGCGCGGCGCAGCAGGGTCAAGCCCCTCCTCCCGTGGGCCCTCTGCGCGCCTCCCTGGCCCGCGCTCTCCCTCCGCCTGGGTGCCCAGTCCGCCGCACCGGAGAGTACTGACCCACGTCTCCACCTGGTTTTCTTTCCCTCTCAG
Seq C2 exon
GTCTCCTCCGGGCTGGGGCTGAGCAAGCCCTCGGAGTGACCGTGGGTGACAGCGGCTCCAGGGACTCTTGGGGCGCAGTGGGGAAAGTGCCGGACCACCATGCCGCGCTCATTTCTCGTCAAAAGCAAGAAGGCTCACAGCTACCACCAGCCGCGCTCCCCAGGACCAGACTATTCCCTCCGTTTAGAGAATGTACCGGCGCCTAGCCGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162676-GFI1:NM_001127216:1
Average complexity
IR-C
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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
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)