HsaINT0066538 @ hg38
Intron Retention
Gene
ENSG00000162613 | FUBP1
Description
far upstream element binding protein 1 [Source:HGNC Symbol;Acc:HGNC:4004]
Coordinates
chr1:77955255-77956700:-
Coord C1 exon
chr1:77956572-77956700
Coord A exon
chr1:77955330-77956571
Coord C2 exon
chr1:77955255-77955329
Length
1242 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACT
5' ss Score
9.01
3' ss Seq
TTTTGTTTTGCTTGAACAAGGAG
3' ss Score
3.02
Exon sequences
Seq C1 exon
CTAAGGCAGGAACGGATCCAAATTCAGCAGCTTGGGCTGCTTATTACGCTCACTATTATCAACAGCAAGCACAGCCACCACCAGCAGCCCCTGCAGGTGCACCAACTACAACTCAAACTAATGGACAAG
Seq A exon
GTAACTACAGAACTTATTGTATGTGAAAGCCAAAAGTTGTGCTTGGAATTATATATGAAGTACATCACTGTATAATACCTAAAATTTCTGACATTATTTAATTATAATTTAAGCAGACTTTTCCTTTTTTAAATTGTTACTTTGAAATAGTTTCAAACTTTCATAAAAGTTGTAAGAAGAATACCCGGAGCACCCAGATAGCCCAGCTGTTAATGTTTTATTCCCTTGTTTACTCTGTTACCATCTATATCATACATGTGTATCTGTATTTATTTTAAATATCCATTATAATTAGTTCTGAAGGAAGCTAATTATATCCAGCATAATTAGTTCTGAAAGAAATCACTGAAGACTAAACTGTAGACATGATGTCCTGTTGGGTACTTCTTCAAAAATACATAACCATCATACAGCCCTCCAAATCAGTAAGTCAACATTGATATATTAAGTTCTTTATATCATTATGGATTTCTGATTTTTGCAGTAGGTTATATTTTTAAAGTATTTTTATAATTTTGATAATCAGATTATCCTGGATTTGGCCAGTCAGGGAGTATATTCAGGGTGGTGCCTATATCCTTTTGAAATACCTGTCATTCTTTTAAGCACTTCCATACTGTCTGGCACAGTAAGATTGTTATTTTGTGCTTTCTGGGCTCCAGCCCTCGAGTCAGCTATTTCTTCAAGGAGCTCTTATTCCTTTTAGTAGAGTATGGTAGTTAGAAACGAGACTTGAGTATGCTTGTTGCTACTGAGGTGTAATTGCTTCTAGCTTCTTTCAACAGGCAGAACTAGGAAATATATTTACATACATGCATACCTACATACACACACCAAAAAACACATAAACATCGATATATGTATATATTTTTAAAAACTATGTTCATATCACCACATCCGTTTCAGCATTTTGGGGTTTTCAAGCCTTTTCCTTTTTTGTACTTGTTTACAAACGTGAGAAACCTGGTGTCCTCAGTGTATTTCCTTATTTGACATGCATTTACTTATATGTTCAACATAACCAGTCTTCAAACAGGTTGGTTTTCTTTTCTGTCCACCACCTCTGTACCCCCAGTACCTTCTATCTTTGGCACTGTTAGGGATGCCACCACCACATAGTACTTCCCTCCTACCCTCACTGTCACATTGCAGGCCCCTGCCAGCTCCTGCACCCAAGGAAACGGCCAAAATTGCCTTTTAAAAACTTTAATTCTGTTTTTTGTTTTGTTTTGCTTGAACAAG
Seq C2 exon
GAGATCAGCAGAATCCAGCCCCAGCTGGACAGGTTGATTATACCAAGGCTTGGGAAGAGTACTACAAGAAAATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000162613:ENST00000294623:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.805 A=NA C2=0.654
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF090055=DUF1897=PU(78.6=84.6)
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:
GAACGGATCCAAATTCAGCAGC
R:
TTCTTGTAGTACTCTTCCCAAGCC
Band lengths:
190-1432
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