HsaINT0068659 @ hg19
Intron Retention
Gene
ENSG00000162676 | GFI1
Description
growth factor independent 1 transcription repressor [Source:HGNC Symbol;Acc:4237]
Coordinates
chr1:92940318-92944310:-
Coord C1 exon
chr1:92944145-92944310
Coord A exon
chr1:92941765-92944144
Coord C2 exon
chr1:92940318-92941764
Length
2380 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
TCCCCCTCCCATCCCCACAGGTG
3' ss Score
13.56
Exon sequences
Seq C1 exon
GAACGGAGCTTTGACTGTAAGATCTGTGGGAAGAGCTTCAAGAGGTCATCCACACTGTCCACACACCTGCTTATCCACTCAGACACTCGGCCCTACCCCTGTCAGTACTGTGGCAAGAGGTTCCACCAGAAGTCAGACATGAAGAAACACACTTTCATCCACACTG
Seq A exon
GTGAGCTAAAAAGGCCCTTGGCTTGTAGGAAACACCCTGAGGCCAACATTACTCATCTTCTCTGATTTCTGGCCCCAGTGAGTGGTGGATGAGGCCTTTCTGATGGAGTTATTCTCTGCTCTGTGTTAAAGAAAACAAAGGGGTGGGTTCTTTGGTTCATTTACCGGCATAATTCTCCCCAGAGCCACCTTGATTTGGGGTTGTGTCTGAAAGGCCACTCAGCAGGTCAGCTCACAGGTACTCTATACTTGGAAAGAACATTTTCCTTTAGGTTAGCAGCTGCTTCCCCTGCTGCCTGCTCTGGGTGAAATATGAAGCTCCAGGGTCCTCTTAGAGAGTTGCTCTAAAGCTTACCTAGAGATTGAGGACTTTCCCTAACCACCTGGCCTTTTGTGGGAGGGACTCGTGTGGACTCTCCGGCTGCATTTTCAGGAGTCTGAGAGCTTATTCTGATTGAAGAGGAACAAATAATGGCAAATATGATTAAACTCTCTGCTAAGCATTTTTTAAATGCATTATTTCATTTTATGCTCACAACAACTCTGAGAGGTAGCGACTACTCCTTCTCCCCATTTTAGAGATGAAAAAAATGAGGCTAGGTAATCTGCCCAGGGTCACACTGCTAGCAAATGACAGGGCCAGAGCTCAAATTCAGGTCTGACCTCTCAAATGTTCACTCTTGACCACTGTTTATTGTATTTTATGTTCAGAGTCATGAGGTTGGTAGACAGAAAGCTTCTGTTCACTTATTGCCCTTTTCAAAATATCTGCAAGTTAATGCCATAATAATGATAATTCCTTACCTATTATAATGCTTTATAATTTACAAAGTACTTTCAAATCTATCATTTCATTTGATTCTTATTGCCACTCAAGAAAGTAGAAGGAGCTGCTCTTACCATCCTGAAACTCAGAAAGAGTGAATGATTTATCAGAAGTAAGACTGAATGAATAATGTAGCCATGTAATGCTCTGGCTTTTAATCCTGGACTGTTTGTCTAACACTTTATGTGCGGGTGGGAGTTTTAATGCCAAGAACACTCTAATAGTCAAAAGACATTTACATGAGACCCAGAATTTCTGAAAATTTTATTGCAGAATATGAATACTGATTTAGAACAAATCACAGTGTATTCTAAACACCCACCCTTGATGTTTATAAATATACTTGGGTAATGTATATATTTCCATTGAAAACCCAGAAAAGTATTCTACTTTAATCATTCCCTCTTACCTGAAATTTCCATGTAATTCACTCCTTATAAGTAAGGTATTCAGGACACTTATCAAAATGCAACTAGGATCTTGACTGAATAAAACATTAAGCCCTTATCAAACATTTACGTTATACCTAGAATTTGTTTTCTCAGATTTGTTTGACCCTAAAGGGATAGAATACATTTTGATGGGTGGTTTCTTATCAAGGAAATCTGAAGCATGAAAACAGAAAAGAGTTTTTAGCAAGGAGGACAGAGGGTTCCTCAAAAACAAACTTCATCTATTTTATACTTTTTCCAAGGCTGAGCCCTGACTATAATGCCATGCTGGGCTATTGGAAATTCATGCCATTTACCCAACAACACATGAGATGGGGAACAAGACAAAACCTTCTTGTGTTCTCTTATTTATTAATTTGTGGTGAAGAATTGCTGGTATATAAAGAATCATGTGATTAACCCCATAAAATTAAGGAAAAATCAAGACAGTAAAGTATCAGCTGCCTTAATCCTTTGTGGCCCAAATGTGGATTTTTAAAATAAGATATTGAAAAACGTATCCTGCACATGTACCCCGGAACTTAGAAAGAAAGAGAGAGAGAGAGAGAAATAAAGAAAGAAAGAAAGTCCATGTTAAGATGTTTTTTCAGATATAATCTGCTGTCCTTCAAGAACAAGAAAGAAGACGGGCTCACTGATCCATACAAACTAACACCCACTTGGAAATTCAGATTTGAAAACTTCCTCTGAATTAGAACGGAGTCACACGGTTTTAGGACAGCTTCCCCCTCCCCTTCCTGTTGAACATCTGCTCTGAGTGTTCATGGCTTATAAAGTCAGGGGAGTCCTCCCGGGGTAGATTCAGCTGGGGAGGGCACGTGGCCTTTGCTCTGTTTCCGTTTAGCAGGAAACCGTTTGAGGCCTTTGGCTGGGAACCCCCCTTCAGAAAGTCTCCCTTTCACCTGGTGCCCCCATGGTGCTTCCAGGGACTCGCATTGCAGGCTGGGAGTCAGTTCAGGTTGCAACACGTCACCCTCCAAGTTGCTTGAAGGCCTTAGACTGTGGTGCAACCAGCTGCTGCCAAGAGCATGTGGGTCACAGTGGGTCCCCTCTAGCTTTATCATAGACTCATACTTTCTCCCCTCCCCCTCCCATCCCCACAG
Seq C2 exon
GTGAGAAGCCTCACAAGTGCCAGGTGTGCGGCAAGGCATTCAGCCAGAGCTCCAACCTCATCACCCACAGCCGCAAACACACAGGCTTCAAGCCCTTCGGCTGCGACCTCTGTGGGAAGGGTTTCCAGAGGAAGGTGGACCTCCGAAGGCACCGGGAGACGCAGCATGGGCTCAAATGAGCACCCTGGCTGGCTGCAAGCAGCAGCTACACAACACTACAGAGGGCAGCCTCCCTGCTTGCCACCACTCTGCTCCCTGCTTGCCTCCACTCCCTTCTGACTTTCCAGACCCCAGGTCCAGTCTGCAGATCCTACCAGGTTGCTCCTCCTTCGCCTTACCTCCTGGAGCTGCCAGAAGAAATGAGGTACCTTTTCAAAGTGCAGCCGAGAGTGAGAACCAAGTGACTCTCTAGGCTTCGGACACAAATAGGCTCCTCTACACCTGAAGACAAAGGCAAAGTCAAATGGGGACCAGAATAAATCTTAGACCCCACAGTCCTTCCCATTTCCAGCCCTAATCTACAGACAGGAATGCCCTTCAGGTTTCTTCCCTCCCCCCTCTTGACCTACCCCAGATATTTGTGTGGAAGAGGAGGAATCACCATTTACAAGGTGGACAAATGCTAATATTTTTATCTAGAAAGAAGAGTGAGTGTTAACTTTTATTTTTTTCCTTCTGGGGGGTCTGTTGACTCCTTTCTTTTGGGTGCTGCCTATAAATCTTGGAGGAATCATTTCTCCTCCTCAAAAACTGATTCAGAAACTGACTTGGGGAAGGAATTTAATACTTTGAAGTCATGAGATGCACCATCGAGGCTACCCCCAAGAAGAAGCAGAAGAGAAGTTGGTAATGAGAGGGGATTAGAGGTCCTCCCTTCAGTAGGGCTGTGAAAACCTCATCACTGGAGGTAAAAGCACAAGCAATGCCTGTGGACAAGATGTCATTCATTCACTCAGCAAATGTTCATGGATCACCGGCTACCAAGGTACCAGGCACCATGCTAGGTATTGGGGAAGAGAGACTGAAGTCACAACCCCTGACTGCTCCTCAAAAGCTAACGGTTGCACCTCCAAGTGGCTGGGTCTGTTCTTACTCTTGGAGGGAATTCTGAGAAGACAGCACAGAATTGTAAACCTTCCCTTTTGACCCTTTTGGATTTTATCAGGTGTAAACAAAAAGCTGAACAGTTACTTCAAAGATATGTGTGTATATTCAGTTTTTTATTGTTAAGCTGATATTTTAAAGATTTCTGAGCTAGCAGGCATGTGGGAAGGAAGGCTCTGTCTTCAACTCTTTGACCCTCCATGTGTACCATAGAGGGGGGAAAGGTGGTATTTTCACTTTGATGAGGTTGGTAAATGTTTTTAGATCTTCTGGTAAGCATTATGTTTGTTAATACATATTTATTAGAGTGATGTTTTAAGTTAATAAAGTATTAAGAGTATTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162676-GFI1:NM_001127216:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.107 A=NA C2=0.186
Domain overlap (PFAM):
C1:
PF0009621=zf-C2H2=WD(100=41.1),PF102764=zf-CHCC=WD(100=39.3),PF134651=zf-H2C2_2=PU(38.5=17.9),PF0013017=C1_1=PU(11.8=10.7)
A:
NA
C2:
PF134651=zf-H2C2_2=PD(57.7=25.0),PF0013017=C1_1=PD(86.3=73.3),PF134651=zf-H2C2_2=WD(100=41.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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)