HsaINT0066550 @ hg38
Intron Retention
Gene
ENSG00000107164 | FUBP3
Description
far upstream element binding protein 3 [Source:HGNC Symbol;Acc:HGNC:4005]
Coordinates
chr9:130622708-130623711:+
Coord C1 exon
chr9:130622708-130622810
Coord A exon
chr9:130622811-130623610
Coord C2 exon
chr9:130623611-130623711
Length
800 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
TCTCTCACCTGGCTCCTCAGATG
3' ss Score
7.96
Exon sequences
Seq C1 exon
GTATCTGTGCCTAGGTTTGCTGTGGGGATTGTAATAGGAAGAAACGGGGAAATGATCAAAAAGATCCAGAATGATGCTGGTGTGAGGATTCAGTTTAAACCAG
Seq A exon
GTGGGTATGATGATTTAAAAATCCTTAGTGTTAAAAAAAAAAAAAAATCCTTAGTGTTAAAAGGATGATAAAACACCTTACAAAACAAGGGCTTGGCTATTGGTTCATGTGTATTCACCTTTCTCATCCTTGCAACATCCTGCTACCAGATGACCAATCTCAGTTTCTTCTCCCAGCCTTCTTTTCCCTCCCCGGATACATGTCGGTCACCTTTGATTTCCAGGCCTTTTTTCTTTTTTCTTCCTGGAGTATATGCATAGTATGTCATAAATGCATAGTATGTCAGCTTCTGATTTTGCCAAGTAAAATTTTAAAATATATATGTATAATTTTGATTTTATTAAATTGGAGATAATTTAAAACCACACACAAAGACAAAACATCTTAGAATAAAGGACAAATTTTTAAATTTTATAAATTTGCCTTAATGAGCAAAATTTTCGACGTGGTCTGAAAAGAGGAAAACATGGCAGGCTCTTCTCTGGAAGCTGTTGCCATAGCTCTGCTCTGACTCCCTTGGCTTTTTTAAAGTCAAGCTTTGTTTTAGTTCTTTAATGATACATTTTTTAAATGGCTATAATTGCATAAGAATTGAGCATTGACCTGAAACATGCAAAACAATATAATGACACACATTTTCCTATCACCCACATCACTCCAAAAGAGTCCCTGCAGCTGGCAGTATTCCTGTTGCCCCTTTTGGCACCGCGGGTGAGAATATTGATTGGGAATCAGATTAATCCTTGTTTCCTTCTAACGTTGGGCTTTTTTCTAATCCTGTCTCTCACCTGGCTCCTCAG
Seq C2 exon
ATGATGGGATTAGTCCAGAAAGAGCTGCCCAGGTCATGGGCCCTCCGGATCGGTGTCAGCATGCAGCGCATATCATCAGCGAGCTGATTCTTACAGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000107164:ENST00000319725:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.171 A=NA C2=0.449
Domain overlap (PFAM):
C1:
PF0001324=KH_1=FE(54.0=100)
A:
NA
C2:
PF0001324=KH_1=PD(39.7=73.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTATCTGTGCCTAGGTTTGCTGT
R:
TCAGCTCGCTGATGATATGCG
Band lengths:
190-990
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