GgaINT0124192 @ galGal4
Intron Retention
Gene
ENSGALG00000003941 | FUBP3
Description
far upstream element-binding protein 3 [Source:RefSeq peptide;Acc:NP_001006199]
Coordinates
chr17:5934630-5935481:+
Coord C1 exon
chr17:5934630-5934732
Coord A exon
chr17:5934733-5935380
Coord C2 exon
chr17:5935381-5935481
Length
648 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGT
5' ss Score
7.44
3' ss Seq
TTTGCCACTTCTCTTCACAGATG
3' ss Score
10.92
Exon sequences
Seq C1 exon
GTCTCTGTGCCCAGGTTTGCTGTTGGAATTGTGATAGGAAGAAATGGAGAAATGATCAAAAAGATTCAGAATGATGCTGGAGTTAGGATTCAATTTAAACCAG
Seq A exon
GTTTGTGTGAGGATGGAGAGCCATTACTTTCTGACCAGTGTTCCAGTTTGGGATCGCTGCAGTGATTCTGCTCTGAGGTTACAGCAGCTAGGCTTTCCTCACTTAAAGGTGCATTGTCTCTTTCTGAAAGCTGTTTAATGACATACTTCTTCCTCATGCACTTCCTGTTTTTTGGAAAGTAAGATTATATACGTCTTACTTACAAACATTAGATGTCACAACAGTAATGTCTTGACTGGTAACTGTATGGACAAACAAAATAACACTTCTGTTTCCTGTTAAGGAGTTCTCCTTCAGGACATGAAAGCCTTTGGGGATCAGGAGTTGATTAATTCTAAGTAACTTTCTCTGGGTCCTTGGCTGTCTGATCACCTATCAAAGCTGCCTTTGTCCTCTTAAAATTATATCAATCTCTCTCGTAACTTTTTGACATTTGAAAGTGTTGTCTTTTAAATGCTGTCCCCTCTGCATTGAGATTTTGTCTCCTTTCAGTATGTGGAAGTGTGGCTGAAGGTGGAGGGGAGAGAGAGTTTGGGCTAGATGCATTATGTGAAAGTGCTGCTAGCAGTGGTGGTGCTAGAAGGAAGCTTTTATTGGTGGGTGGATGTTTTCTTCTTTTAATTTAGTCTTTGCCACTTCTCTTCACAG
Seq C2 exon
ATGATGGGATTAGTCCTGAAAGAGTCGCACAGGTCATGGGGCTTCCCGATAGGTGTCAACACGCAGCACACATCATCAGCGAGCTTATTCTTACAGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003941:ENSGALT00000039554:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.171 A=NA C2=0.206
Domain overlap (PFAM):
C1:
PF0001324=KH_1=FE(54.0=100)
A:
NA
C2:
PF0001324=KH_1=PD(39.7=73.5)
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:
CTGTGCCCAGGTTTGCTGTT
R:
TGTGCTGTAAGAATAAGCTCGCT
Band lengths:
199-847
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]