HsaINT0068660 @ hg19
Intron Retention
Gene
ENSG00000162676 | GFI1
Description
growth factor independent 1 transcription repressor [Source:HGNC Symbol;Acc:4237]
Coordinates
chr1:92948930-92952433:-
Coord C1 exon
chr1:92952283-92952433
Coord A exon
chr1:92949144-92952282
Coord C2 exon
chr1:92948930-92949143
Length
3139 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTT
5' ss Score
7.64
3' ss Seq
TGGTTTTCTTTCCCTCTCAGGTC
3' ss Score
11.68
Exon sequences
Seq C1 exon
GAGGGTGCGCCCACCGGTCCCGCCGGGCGCCCGCGGGACGCGCCGCCAGGGCCCTCTCCGCCGGGGGCTCGGCGCTCGCCCACCTCTTCCAAATTTAACCATTACCTAAATCCGAAGGGAAATGAGCAAACCTCTCGGATTGGGTGTCAAG
Seq A exon
GTATTTTCAGCCTCGTTGGGCGTATTTATCCCCAAGTGTTTCCACAACAAGCTATTTCGGGGCCTGCGGGGCAGGTTTCGCTCTGCGGACGCCGTGGCCACTCGCCGGGCTCCAGGCCGGCGGCACCGCGGGCCGGTGATTCACGGTCCCGACCCGGGGGTGGTGCAGCCCTAGGAGGCGGCGGGGTCGGGGGTGGGGGGGGCGGGTGACCGAGGCCTGAGGGGCGGGGAGGGTCCTCGGAGCGGGGCGCCCCCCACCCCTCTCTCGCCAGTCAATCTGTGTCCTCAATCTGTGGCTTCTCTCGCTGCGGAAGTCTCCCTGGAGCCAAGAATAGTTCATTTTCTTTCAAGTCATTTCTAGTGCCTAAGTGTCCGGACCTCCAATTTCCCCCATCCCCTGCCGACCCACAGGGAGAGAACTGGGAGGACTACTAAGGGGCGCGCGGGACGGGCTGGAAAGGCCAGGCCCCCCACCGCCTGGCCACTTGCGCAAAGGAGCGCGCCCGGCCGCCCGACGGGGGTTGGGAGCAGGTCTGGGAGGGCTATGCGAGCGACTCAGTAACGCTCAGGAAGTGAAGCTTGTGGTTTTGGGGGCTGAGCTCGGAAGGAGAATTTTTTTTTTTTTTAAGTCAGAGAGATAGAGCGGTCTCTCCCGAAAGCAAGATTCCGTTTGAAAACTCTCCTAGCGCGGTGCCCGCGCCGTGACTCCGCAGGTAGGTCCGCCGAGCCTGTTCTGCGCCTCCTGCCCTGGTGGGGGCGGCCGCGGGGACTCGCAGAGCACTGGCACTGCGGGGGCGATCAGAGGGCGCGGGCGGTTTCCCACCTGCTGCGGACCGCCGTGCGGGAGCCCAGAGAGCTCCGGCAGCTGGGTTAGGGCGCGACCCGCGCAGTGTGACTGGAAATCTGGAGCTGGGGGCGCGCAGCAGGCGGTCTGGTGGTTCGGCAGGGGAGCCAAATCCACCAGGGAAGGAAACATCTGGTGGGGAGGCGGCGGCAGCTGCGCTCGGGAGGACGCCCCCTTAGCGCCCTCGGCTCCCTCCTTCCTGGGCCCGGACGGTGAGGAGAGGCCTGAGCGCGCGGAGGGGCCGCCCCACCTCCCGCGCCAGCTGCAGCGCGGGGTTGCCTTCCCACGCGCTCGGCCCAGGCCCCGGGGCCCCTATCTCCTCCAAACTCTGTCGCTCCCCACAGGAACCAGCAAAGCGGGCCGGGGTGCGAGAGAGGCGTGGGCTTACAGCCCGGGTGGGGAGGCGGCCTCCGCGTCCGCCTGGTCTCTGGTGGCGCCAGCCCAGACCCAGCTCCGGCGCTGACAGTTACCCCGCCCCCATCTGTCCCGCTCCCAGCCAACGTGGGTCCAAGCTGCAGCGGGACCCTCGGGACAACGCCACTCCGTTTTTCTTTTCTTCCGAGTTTCGTGGCTGTTTAAAGAATTGGGTTTGGGGTTTGTGGCGTCTAATTGTACGGACGAGAAGTGCAGGAAGCGACAAAGCTCTAGCCCTAGGAGCCACCCCGGAGGGAGGCGGATGGCACTCTCACCCCTAGGGGCATTCTGGCGCTTGGGTAGCGGGAAACTTCGCGGGAGCCCCGCGACACGTCCCAGGCGTCTTTTCTCCCAGGTCTATTCCCATTCCTCCGGAGAAGGGGACACAATGGGGCTGGGGATCTGGAGCAGGGGGCCTGCACCCTACAGGGACCAAGGCCTGTAGGACTCGTTTGAGCTGAGAGCGCCAACGGACAGACGTAGACTGTGTGGCCTGCATCTTGCCTAGGAAGCCGAGGGGCTCCTAGTCCGGCAGTGGAAACAGCGCGAAGCCGGAGGACTGCAGGTCCTGCCCCGGCCCAGAGTTCCCAGCACCCTCGTTTCTGAACCAGCCGAGGCCACGGAGAACTGCTGTACTGCAGCTCACGTGTGAACCCGGTCACCATCGCCTTCACCCCGGGAGGAAGGCAGATTCGTTTACTCCAGACCACCTCGACTGTGGGGTACCGCCCCCGGAGCCGGCTGGAGCCTAGCGGCAGGCGCAGCCACGCCCTCCCGCTGCGCTCAGATTTCGACCTGGTATTAGGTGAACTGATTGGGGGTTAATGAGAGCGACGCCCCGGGCAGCTAGTTCCCTCCCGGGCCCGGGCCCGACCCCCGCTCTCTGCTAATGCAGCCTGCGCGCTCTGGCGTCCTGTCTTTTTTGTCTGCTAAATTGTCGGTGCACTACCGACTCGGGACACCTAGCATTTCCCAGTCAACGTTCGTGGATCGGGCTCCACCTCCCTAGGACAAGATTTTTTGGTGAGCAGAACGGAAAGTGCTTTTTTCCCGGGACCTGATTCCCGAGGTTAGGTCTCCATGGTCTGGGATGGCTCGCCGCAGCCTCGACCGGTGCCCGCCGCAGCCGGGAGTCCAAGGGCAAAGTTTCTCCTACGTGGGGCACTAGTGAGGGGCGAGTGGGATCACCCAGATGCGAGTTTCTCCTGGGGCGGGGGTTGGTCGTCTGTTGTTCCCCTCACTTTCCTGTCCCTTTGCTCTCCCACCTCCTTTCTCTGGCCTCTGCTGTCCCCAATCCCTCTGCTGCTGTCCTCCCGCCGCCCCACAGTTTTATCTTGTGTTCTGTTCCCCCCTCCCCCCGGTCCTTTCACTCCAGTTGGTAGCTGGCTCTTGGAGGTCTTGGCTCCTTGCCCCTTCCGGGTCCTCGACCACTGGGCATCCCCGGCCCCTAAACCGATCCGCGTGTCCCCGCCCTCCCTCGCCAGCCGTAAAGCACAGCCAGGCAGGCGATGAGTAGCTGAGTTGGGGTAACCCACCCGATGGGAACTACAGCTCTCCAGGGAGTTTGATTGCCGGAGCGAGCTTCGCTAGGAAAGGGGAGGAGCTGGGGGGCGTGGGCAGGGAGGAGGAAAGGGGCCTGAGACAGGGCCCCGGGACAGGTTTTACCGCTGAGCTGTGTCAGTGGCGGCGGCGGCAACGACGGCGGGTTCGCGCCACCTGTCCAAGTGCCACCTGGTAAGCGCGGCGCAGCAGGGTCAAGCCCCTCCTCCCGTGGGCCCTCTGCGCGCCTCCCTGGCCCGCGCTCTCCCTCCGCCTGGGTGCCCAGTCCGCCGCACCGGAGAGTACTGACCCACGTCTCCACCTGGTTTTCTTTCCCTCTCAG
Seq C2 exon
GTCTCCTCCGGGCTGGGGCTGAGCAAGCCCTCGGAGTGACCGTGGGTGACAGCGGCTCCAGGGACTCTTGGGGCGCAGTGGGGAAAGTGCCGGACCACCATGCCGCGCTCATTTCTCGTCAAAAGCAAGAAGGCTCACAGCTACCACCAGCCGCGCTCCCCAGGACCAGACTATTCCCTCCGTTTAGAGAATGTACCGGCGCCTAGCCGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162676-GFI1:NM_005263:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
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
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
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]
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)