GgaINT0039159 @ galGal3
Intron Retention
Gene
ENSGALG00000008939 | FUBP1
Description
NA
Coordinates
chr8:19598834-19599680:+
Coord C1 exon
chr8:19598834-19598935
Coord A exon
chr8:19598936-19599577
Coord C2 exon
chr8:19599578-19599680
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=0.297 A=NA C2=0.324
Domain overlap (PFAM):
C1:
PF0001324=KH_1=PD(7.7=27.8),PF0001324=KH_1=PU(1.6=5.6)
A:
NA
C2:
PF0001324=KH_1=FE(54.8=100)
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:
CAAGCCAAGGAAATGGTGCTG
R:
AAATTGGATCCTAACACCAGCA
Band lengths:
198-840
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]