GgaINT0124195 @ galGal4
Intron Retention
Gene
ENSGALG00000003941 | FUBP3
Description
far upstream element-binding protein 3 [Source:RefSeq peptide;Acc:NP_001006199]
Coordinates
chr17:5940843-5941904:+
Coord C1 exon
chr17:5940843-5941003
Coord A exon
chr17:5941004-5941830
Coord C2 exon
chr17:5941831-5941904
Length
827 bp
Sequences
Splice sites
5' ss Seq
GGTGTAAGT
5' ss Score
8.07
3' ss Seq
ATTTCTGGATTCTATGACAGGGT
3' ss Score
5.32
Exon sequences
Seq C1 exon
GTGGTGAGAACATCAAGAGCATAAATCAGCAGTCAGGAGCCCACGTGGAGCTGCAGAGAAACCCACCTCCGAACACAGACCCTGGTGTACGAATATTCACAATCAGAGGAGTTCCCCAGCAGATTGAACTTGCTAGACATCTCATAGATGAGAAAGTTGGT
Seq A exon
GTAAGTTCCATCTCTGCTGATTTCGATCTGTCTCTTTCAGAAGTGTTTTCACCTGCAGGTACGGGTAGGCCTGGACTTACAGGTGGCACAGTGTGCACTCTTAACGTTATTTAGCTTCAAAACTATTTGCCTGTTAGCAGCCATCTTGAGCTTTGGCTCTTGAGCATCCACTGGACTAATTTTTGCTGTGGTCCCAGGGGGATCTGACTGCTGACATAATCAAGAGTAGTGTGCAGCTATAATAAGGCATGAGAAGGCTGCCAAGTGGGATTTTGAAGGGAAGACTATAGTGTTACTGTGTGAAAATGACATAATCTTGGCATCATAACCCTAAAAGTAACACTGAACTCCTTGCTCCAGTAAATCCAGGATGATGTTTATCTTCTACTTAATGCAGTGCTGTGGTATTGGAGCTTAATAATGTCAGGCTAGAATGCTACTGAAGGGGAAAACTTGGGTAGAAGGAAGTAAGGAAAATACTGAACTGGAGAATAGTAAAACTGAAAAGCAACCTTTGTGTTGAATTACCTGAGAGGAGAAGGCTTGATACCAGCCTCAGGATCCAAACTATTCAAATGAAAACTTCCAGCTGTGCTGTAGTCCTGTTAGCCCCTTTGTGGCTGGCCAGGGTTGCTTCTGAAGCTGAGCTCCTGAAGTGTGCTCACAGTCCTGAGAACTTCATTCTTGGAAGATCAGTCCTTACTTTCAGGTGCTGGGGTTTAATGAAACATAGCCCAGGCTGTCTTCTCGCCTTTCTTACTGCTCCTTCTGGACAACTCCACCCTCTGTGTAGAGCTGACGTTAAATATTTCTGGATTCTATGACAG
Seq C2 exon
GGTACCAGCATGGGTGGACCTGGAGGATTTGGTCAGAGTCCGTTCAACCAAGCACCCACTACACCTCATCAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003941:ENSGALT00000039554:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.718 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0001324=KH_1=PD(72.7=88.9)
A:
NA
C2:
NO
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:
GTGGTGAGAACATCAAGAGCA
R:
TGATGAGGTGTAGTGGGTGCT
Band lengths:
232-1059
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]