GgaINT0039159 @ galGal4
Intron Retention
Gene
ENSGALG00000008939 | FUBP1
Description
far upstream element-binding protein 1 [Source:RefSeq peptide;Acc:NP_001006535]
Coordinates
chr8:17798603-17799449:+
Coord C1 exon
chr8:17798603-17798704
Coord A exon
chr8:17798705-17799346
Coord C2 exon
chr8:17799347-17799449
Length
642 bp
Sequences
Splice sites
5' ss Seq
GACGTAAGC
5' ss Score
7.1
3' ss Seq
ACCCTTTTATTTTGTTTAAGGTT
3' ss Score
10.41
Exon sequences
Seq C1 exon
CAAGCCAAGGAAATGGTGCTGGAGTTAATTCGTGATCAAGGTGGCTTTAGAGAGGTGCGCAACGAATATGGGTCAAGAATAGGAGGAAATGAAGGGATAGAC
Seq A exon
GTAAGCATGGTTGAAAAACTTGTTCACTGTATTTTGAGATGTTAATGTTAAAATGTTAAAGTGATTAATATTGTTGAAAGTTTTTGACTACATTCTGAAAGTAATTGTAGTGTGTAAGTAGTATTTGCTAATTGCTTAAGTTTTGCCTTTAAATGGTGTGCAGTATTCGTTTTATATTACCAACAGTTCTGAAGAGCCGCAGTTAGTTGGCGAATTTAAGTCTTGTAAATGAAAGCAAATAAGTTTTATGGCTAAGTATATAATGATGGATGTCATTACAGAAATTGGAGTTTGGACATTAGAGTATTTAATTCCACCTGTTATGCAAGTTTTGAACTTACAACTTCATCAGAGGTGAAGCTGAAAGTTACACCTACTGAAATCTGCTATTTAGGCCTATTAGAACTTTGTTCTTTACTTGTGGAAAGTATACTATCCACTGTAATTTCTGCCATTATAAGAACATGTAGTGCACTGGATTTCCTTCTTTTTGATGTTTTCTTCCGTTATTTAATGAGCTTGTGGATTGATCGTTGATATTGAAAAATAAAATTAAAAAAATCACTCTTCAAAAAGCCTTAAGTGGCATAGGTCCAGCCTTAGTTTACCATTCTAATATGTTACCCTTTTATTTTGTTTAAG
Seq C2 exon
GTTCCAATACCACGGTTTGCTGTAGGTATTGTAATTGGAAGAAATGGGGAGATGATAAAAAAGATACAGAATGATGCTGGTGTTAGGATCCAATTTAAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008939:ENSGALT00000014525:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.324 A=NA C2=0.314
Domain overlap (PFAM):
C1:
PF0001324=KH_1=PD(7.7=14.7),PF0001324=KH_1=PU(3.2=5.9)
A:
NA
C2:
PF0001324=KH_1=FE(54.0=100)
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:
CAAGCCAAGGAAATGGTGCTG
R:
AAATTGGATCCTAACACCAGCA
Band lengths:
198-840
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]