GgaINT1013536 @ galGal4
Intron Retention
Gene
ENSGALG00000003941 | FUBP3
Description
far upstream element-binding protein 3 [Source:RefSeq peptide;Acc:NP_001006199]
Coordinates
chr17:5946574-5947740:+
Coord C1 exon
chr17:5946574-5946701
Coord A exon
chr17:5946702-5947488
Coord C2 exon
chr17:5947489-5947740
Length
787 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
TGCTGTCCCTCTGCCCACAGGAG
3' ss Score
11.76
Exon sequences
Seq C1 exon
GTCATGCTGCCAGCGCTGCTTCTCAGGCGAGCTCCCAGCCGGACTACACGATGGCCTGGGCAGAGTATTACAGACAGCAGGCTGCCTACTACGGGCAGACACTAGGGCAGGCGCAGGCCCACAGCCAG
Seq A exon
GTGTGTATTCACCCTCTGCTGTTCCCCTGGGGGAGCTGGGAGTGCTGGCCTTGCCCGGGTGTGGGGAGAGCTTCGGAGTCATGCAGTGAAGCACAGAGATGTTTTGTGGCTGAAGAAGTCAGAAGTTGCTCAGTGCTACCATTGTATTATCTCAGCATCAGCCTGACCTCCCTGCACAGGGTGGATTTGTGGGGAGAAGTGGGAGGTTGTTGGTTTATTTTCCTTAGGGGCTTTGCTTGTGATCCCCGAGCTGTTCTGTGGCTGCTGGGGGGGGTTCAGCAAAGTGAACAACATCTTCAGGCTGGCAGGATAGAACAGCACTGTTCTGTTGTGCAGACTTTGCCTTTTCTCTTGCAAGCTTTGCGCTAAGGTAGGGGCGTGCCTGGGGAGTACCTGCCCTGAAAGACAGGGGAAAAGCAGAACCTCTCCTCTCCACACCTCTGGCTGTGGGAGGGCTGGGTGGTTTGTCCCGATGGCGCAGAGCTCTGGGTTTGCAAAGGGAACGTGTTAGCATTTGGCAGAGAGCACGAGCAGAGGGATGCAGAGGGGTGGGACGCATCTCCGCTGCAAGCTGTGCTCCATGAGCTGAGCTGCTGGGGCTGCGGGCACTGGAGGAGCACAACCCTGAAGCAGTGATGGAAAGGAGCTCTGTGTGCCGCTGTCACTGAGCGCGGCACTGCAGGAGGGAGAGCCCGAGGGATGCAGAGTGCCGTCAGTGCTGGGGGGGATTGGCGGTGCGGGGCGTTGGGCGCTGCCTGCTGACGTCCTGCTGTCCCTCTGCCCACAG
Seq C2 exon
GAGCAGTAGAACAACGTCCTCGCGGCCATCGTCGCTATTTGGTTTCTCCCTCGGAATCATTGTGGAAGAAAACCTTTTTGTAACAGAGGTTTCTAGATTTGCAACGTTTTGATGAAGACTTTTCTGTTTGTTTGTGAAACACTAGCTGTAGGATAATCCATACTGAACTTTTCTAAGAATCAGGAGCAATTAGTAACGTACTAAACTTACGGACATGCTGGTAATTCTGTTTCTAAATTTGTACAAAACAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003941:ENSGALT00000039554:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.416 A=NA C2=0.636
Domain overlap (PFAM):
C1:
PF090055=DUF1897=PD(30.3=23.3),PF090055=DUF1897=WD(100=76.7)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCTTCTCAGGCGAGCTC
R:
ACAGAATTACCAGCATGTCCGT
Band lengths:
343-1130
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]