HsaINT0066538 @ hg19
Intron Retention
Gene
ENSG00000162613 | FUBP1
Description
far upstream element (FUSE) binding protein 1 [Source:HGNC Symbol;Acc:4004]
Coordinates
chr1:78420940-78422385:-
Coord C1 exon
chr1:78422257-78422385
Coord A exon
chr1:78421015-78422256
Coord C2 exon
chr1:78420940-78421014
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-FUBP1:NM_003902:17
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.824 A=NA C2=0.733
Domain overlap (PFAM):
C1:
PF090055=DUF1897=PU(78.6=31.9)
A:
NA
C2:
PF090055=DUF1897=WD(100=37.8),PF090055=DUF1897=WD(100=44.6)
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
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)