GgaINT0124195 @ galGal3
Intron Retention
Gene
ENSGALG00000003941 | FUBP3
Description
NA
Coordinates
chr17:6536571-6537632:+
Coord C1 exon
chr17:6536571-6536731
Coord A exon
chr17:6536732-6537558
Coord C2 exon
chr17:6537559-6537632
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
GTGGTGAGAACATCAAGAGCATAAATCAGCAGTCAGGAGCCCACGTGGAGCTGCAGAGAAACCCACCTCCAAACACAGACCCTGGTGTACGAATATTCACAATCAGAGGAGTTCCCCAGCAGATTGAACTTGCTAGACATCTCATAGATGAGAAAGTTGGT
Seq A exon
GTAAGTTCCATCTCTGTTGATTTTGATCTGTCTCTTTCAGAAGTGTTTTCACCTGCAGGTACGGGTAGGCCTGGACTTACAGGTGGCACAGTGTGCACTCTTAACGTTATTTAGCTTCAAAACTATTTGCCTGTTAGCAGCCATCTTGAGCTTTGGCTCTTGAGCATCCACTGGACTAATTTTTGCTGTGGTCCCAGGGGGATCTGACTGCTGACATAATCAAGAGTAGTGTGCAGCTATAATAAGGCATGAGAAGGCTGCCAAGTGGGATTTTGAAGGGAAGACTATAGTGTTACTGTGTGAAAATGACATAATCTTGGCATCATAACCCTAAAAGTAACACTGAACTCCTTGCTCCAGTAAATCCAGGATGATGTTTATCTTCTACTTAATGCAGTGCTGTGGTATTGGAGCTTAATAATGTCAGGCTAGAATGCTACTGAAGGGGCAAACTTGGGTAGAAGGAAGTAAGGAAAATACTGAACTGGAGAATAGTAAAACTGAAAAGCAACCTTTGTGTTGAATTACCTGAGAGGAGAAGGCTTGATACCAGTCTCAGGATCCAAACTATTCAAATGAAAACTTCCAGCTGTGCTGTAGTCCTGTTAGCCCCTTTGTGGCTGGCCAGGGTTGCTTTTGAAGCTGAGCTCCTGGAGTGTGCTTACAGTCCTGAGAACCTCATTCTTGAAAGATCAGTCCTTACTTTCAGGGGCTGGGGTTTAATGGAACATAGCCCAGGCTGTCTTCTCGCCTTTCTTACTGCTCCTGCTGGACAACTCCACCCTCTGTGTAGAGCTGACGTTAAATATTTCTGGATTCTATGACAG
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=0.694 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
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]