HsaINT0066540 @ hg38
Intron Retention
Gene
ENSG00000162613 | FUBP1
Description
far upstream element binding protein 1 [Source:HGNC Symbol;Acc:HGNC:4004]
Coordinates
chr1:77947453-77949300:-
Coord C1 exon
chr1:77949155-77949300
Coord A exon
chr1:77947553-77949154
Coord C2 exon
chr1:77947453-77947552
Length
1602 bp
Sequences
Splice sites
5' ss Seq
CAGGTATAA
5' ss Score
7.46
3' ss Seq
CTTGCCATTGTCTGTTGAAGTGC
3' ss Score
5.24
Exon sequences
Seq C1 exon
GTCAGGCAGTTCCTGCTCCGACTGGGGCTCCTCCAGGTGGTCAGCCAGATTATAGTGCAGCCTGGGCTGAGTATTATAGACAACAAGCAGCCTATTATGCCCAGACAAGTCCCCAGGGAATGCCACAGCATCCTCCAGCACCTCAG
Seq A exon
GTATAATGTAATTGCTAATTTGTTGATTTCTACTCCAGTCTGTTTTCTGCATGTTTACTGTTTGTCTGTTTGGGAGTGTTTGCCTTTTAAATTTTTATCTGGCAAAGTATAATAACTATTTAAATGAAGTACTACGGTGTATTGTTTGGGTTTTTTTGTTTTTTATAATGCTTTCCAGCATCTGAGTGGTGAATATTTCTGCAATGCCTTTGATTTTAAAAATAAATTTTCTTCCCCCAGGGATTTGCAAATCATGCAAGAAGCCACCACCATTTATATTAACCACTTTTTCTTTCTTAAAGGATTCACTCCTGAATTAGCTCCATTTCAAGGATTTTCTTTAACTTTTTGTGTATTTCTTATGTATCTCTTCTGCACAGGGCCAATAATAAGAAGTGGACAATACAGTATTTGCTTCATTGTGTGGGGGAAAAAAACCTTTGTTAAATATATGGATGCAGACGACTTGATGAAGATCTTAATTTTGTTTTTGGTTTAAAATAGTGTTTCCTTTTTTTTTTTTTTTTTTGAAAATGTACAAAATATCTATCACTACTGATAGGAGGTTAATATTTCTGTGTAGAAATGAAAATTGGTTTGTTTTTAGTATTTAGTGTAGATGTACACATTCCAGCAAATGTATTTGCAATTATGTGGTTGATGCTTTGTGATATAAATGTACTTTTTCAATGTATACTTTCACTTTTAAAATGCCTGTTTTGTGCTTTACAATAAATGATATGAAACCTCCTGTGTCGGTAAGTTGGATATGTGGGTATTTAAAGGATTCATAATTTCTTAGCAATGATAAATTAAGATACATATACACAAATATATAAGCTTTCCCCATGAAATATTGAGTTTTTAAACACTGGCATGTTTTTCCCCCCTTGCAGTATAGTGGTAGATTGGAGGATCTTTTCCATTTATTGTATTGGCTCTTTCAGCACAAGTAATCCTGATATCTTCATTTTTTTTCCTTCTGTTTGATTAAAAACTGCATGTGTGTACAATGATCTTTTGGCATACTTCCATTGCATTAACAGTGAAATTTCCTTTTATACATGACCACTGTTTCAGACCTGTACTGCTGCTATAACAGTTAACCTTTCTGTTCTTAATTTGATAATACTTGATTTCCAAGACTGTTTCGGCATAACTAATTTTAAACAGTTTTCAGATAGTGAATATGAGTAGTCTAATAAGAACAGTTTTTTTCCATGTGAAGCAACTCTTTCAATGTATATAATGTTAGTGTGTTTCTTTCTAAATTTAGGATAGAAAAGTGAATAGTGTGCAAAAAGTATAGCTACATTGCATCTGCCATTGAAACATAAATGGGGTATGGAAACGTTCAAGCTTTTTTTTTTTCTTTATGCAGTATAGATAAGCTTTGTTTTGTAAATGCACAAGTCCAATCATTGAATCAACTTAATTTTTTTATGTACTTGAAGTCATTTTATTACTCTTTAACACTCATGCTGAAGTTCTGATATTTTGTTGAAATCCATTGTTTTACTCTTTGCATATTTGTTGGCTCTTTGCATATTAATATATTAGACTACATGCAAATACAGTCTGTCTTGCCATTGTCTGTTGAAG
Seq C2 exon
TGCAGGTTTGATCCAGCCAGTATAGAACTAGCTCTGTAGGGGTGAGGAGGACTGTGCTGTGTATCATCCTTGATTGTGTTCCTTCAAGGAGCATTGCACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162613:ENST00000294623:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.780 A=NA C2=0.583
Domain overlap (PFAM):
C1:
PF090055=DUF1897=PD(17.9=10.2),PF090055=DUF1897=WD(100=67.3)
A:
NA
C2:
NO
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:
AGTTCCTGCTCCGACTGGG
R:
AGTGCAATGCTCCTTGAAGGA
Band lengths:
239-1841
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