GgaINT0039162 @ galGal4
Intron Retention
Gene
ENSGALG00000008939 | FUBP1
Description
far upstream element-binding protein 1 [Source:RefSeq peptide;Acc:NP_001006535]
Coordinates
chr8:17800086-17801841:+
Coord C1 exon
chr8:17800086-17800245
Coord A exon
chr8:17800246-17801680
Coord C2 exon
chr8:17801681-17801841
Length
1435 bp
Sequences
Splice sites
5' ss Seq
TACGTATAT
5' ss Score
-5.52
3' ss Seq
AGTTGTATGTTCCATTGTAGGTG
3' ss Score
8.9
Exon sequences
Seq C1 exon
GCTGGTAACCCTGGTGGACCAGGAGGACCCGGTGGTCGAGGAAGGGGTAGAGGTCAAGGCAACTGGAACATGGGGCCCCCTGGTGGATTACAGGAATTCAATTTTATTGTTCCCACTGGCAAAACTGGATTAATCATTGGCAAAGGCAATGTATCTTTAC
Seq A exon
GTATATGTGCATCTCTACGTTAAAAAAAATGATAATAATTTTTTTCTTTCTGTTTCCATAAATATCCATACTAAAGAGGCGCTTCAAGGAAAAGTCCCTGCATATAGTTCTGTATATAGCATAGCAACACAGTCCTGCTGAATTATAACAGCCGTAATATTCTTTTCATAGAACGGCTTGATTTGGAAGGAACTTGTAAGATCATCCACTTCCAACCCCCTGACATGAGCGTGGTTGCTGACTGCTAGATCAGGCTGCCCAGTGCCCCATCCAGCCTGGCCTTGAATGCCTCGAGGCATCCAGAATTTCACTGGGCAGCCTGTGCCAGTGCCTCACCATCCTCTGATTTAAAAAAAAAATAAAAAATAATAATAAAAAAATTCTTCTAACATCTAATCTAAATCTCCCCTGTTAGTTTAAAACCATTACCCCTTGTTCTAGCACTATCAGACTTCAGGTAGGAAAGATTTTCTTCAGCAAAACACACCTCAATAGATAAAAATCAAGCAAGCAATTTCTCTAACCTATGTATTTAACAGTGATAAATACTAAACTACATTTGTAGTGTTTGCTAGATTCTTAGATGTGCATTCTACTTAACTTGCATTTGAATTTGTTTCATCAACCTAGTGTTACTGCATCTGTAAATCACTCTAAGACTAATTTTCATACATTATGGTGAAGATCTTTTCCAGTGGAATCCCGTGACAATTTTTTTGGTGTTTATTAAAACAATCACTTCTCATAGAATTTCATCTTCTAAATTAGTGTATGCTTGAAAATTGTTATCTTCTTTTGTAACAAGTGTATTTTTCAGACACAACAAGTAGGCTGACAGAGTTCAGTTCTTGACCCAGGAGGTTGATTTATTTATTTTTTTAAATGCCAAATGACCTGTTTTGAAACTTTCGTTTCTACTAATGATACAAGTATCTTCTCAGGATTCTCTAATGGGAAGAGCTGATTTAGAGGTATTTGTATTTCTGTTGGTAGTGCACTGCAAAAAACATGGACATTGCCATACGTTCATCTTCTAGTTTTGTAATATGTTTTTAACTACCGCTTTATAGGAGTTTAGGCTTTACAGTTGTATTCAATGATAACTGCAGGTACTGTTTGCTTTGTGACGAATGTTACATCTTTACATGAGTGGAAAAAGAAGTAAACAGCATAGTAGGAGTTCTTTGCTGTTTTTTGTTGGGTTTTTTTTAGTAACAATATTGTCTTAAATCATTTACTGGTTTATTGCAATCAATGCTCTAGGTACAGTGAAGAGACTTAAGTGCTCTTAAAGTGCTTTTATGTGACTCACGCATAGGTGACTTCTCAGTTCTTAATTTTAAACTTCTATATAGTTGATTTTTCTCTGTTTTGATTGAATCTTTTCATTTCACTTAATGCATTAATGTTATAAAAGTTGTATGTTCCATTGTAG
Seq C2 exon
GTGGTGAAACTATTAAAAGCATAAGCCAACAGTCTGGTGCTAGAATAGAACTTCAAAGAAATCCTCCACCTAATGCAGACCCAAACATGAAGATGTTTACTATCCGTGGAACGCCCCAGCAAATAGATTATGCACGGCAACTTATAGAAGAGAAGATTGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008939:ENSGALT00000014525:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.778 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0001324=KH_1=PU(31.0=40.7)
A:
NA
C2:
PF0001324=KH_1=PD(67.6=88.9)
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:
CTGGTAACCCTGGTGGACCA
R:
CCAATCTTCTCTTCTATAAGTTGCCG
Band lengths:
319-1754
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]