GgaINT0125785 @ galGal4
Intron Retention
Gene
ENSGALG00000000864 | FBXW2
Description
F-box/WD repeat-containing protein 2 [Source:RefSeq peptide;Acc:NP_001007843]
Coordinates
chr17:10381050-10383281:-
Coord C1 exon
chr17:10382772-10383281
Coord A exon
chr17:10381245-10382771
Coord C2 exon
chr17:10381050-10381244
Length
1527 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
CATGTTGTTTTATATTCCAGGAT
3' ss Score
10.09
Exon sequences
Seq C1 exon
GTAAATTTTTGCATAACCTTATGGAGAAAAAGGACTTTGAAGCATGGCTTGATAACATTTCTATTACATTTCTTTCTCTGACGGACTTGCAGAAAAATGAAACTCTGGATCACCTGATTAGCTTGAGTGGAGCAGTCCAGCTCAGGCATCTCTCCAATAATCTAGAGATTCTTCTCAAGAGGGACTTCCTCAAACTTCTCCCACTGGAACTTAGTTTTTATCTGTTAAAATGGCTTGATCCTCACACCTTACTCACATGTTGCCTCGTCTCTAAGCAGTGGAATAAGGTTATAAGTGCCTGTACAGAGGTGTGGCAAACTGCATGTAAGAATTTGGGTTGGCAAATAGATGACTCTGTTCAGGATCCTCTGCATTGGAAGAAGGTTTACCTAAAGGCTATTTTAAGGATGAAGCAACTGAAGGACCATGAAGCCTTTGAGACATCCTCTTTAATTGGACACAGTGCCAGAGTATATGCACTTTACTATAGAGATGGTCTTCTGTGCACAG
Seq A exon
GTAGGAAGTTCAGAAAACCTGGAGTCTTACTATTTGTTATCTCTACCCCCCCCAGCTCCTGCACTTGATTAATGACAAATTGATTTTTCTTGACCAGACAGATTATTTTCACCATGGAAATTCAGCTTAAAGCATTTCACCTTTTTTTTTTTTTTTTCCCAATTTCTGAAACATCTGGCATGCTATCAAGCTCACTAAAGATTTTAATAGGGCGGAAAAAAAAAAAAAAAACAACCACGAGACCAATTTATTTATTGGTTAAAAGAAGAGATGGTTACAGTGCTGCATATTGTTCTTCAAATTAGCAAGCTCATTTGAGAAGTACATTTATGTTAGGTATCCTCTTAGAGGATATCTGTGATCTCATTCAGGTTAAACGGAGTTTGGTCTCACCGTGTAGTCACTGTAGCCTCAAGCTGTGTCAGGAAAAGTCTGTCTTCCTGGCAGGAAGATAATTTCTCTGTTACATTCTTAAGCACTTCCAGTTCTTAACATGATCTAGTTTCTTGTATGAATACCTGTAAACTAGATTTAGCCTTGCTACTAATCTGATATGCATATTGCAATGATGGTTTCAGCTTCCTTCCTGAAGACTGCAGATTTCAAGATTTCAGTGTGAACTCAGAAATACTTATCCCTCCATATCTTCTGGTACACTAGGGTGGTTACTAGAAACCCGCAACTAGACTCTGGACAGTCTTTCCGCTTTAGTAGTAACCAGAGAAGGAAAATACAAAGGAAACGGCACTGTCAAACCTTACGGGGAAGCTGCATACTTCTGTGCTGAAACCAAAAGGGAAAAAAGGTGGAAGCATCTAGGATTTTTGTCCAGTCTCCAAAACCAGCAAACTTGAGTTACTATTATAAGTTTTGGTGGAGAAAGGAAACGCAGGTGAAAGGGCCAGGTATTCATCTGCTGTCTTTTCATCTTTCTCTACAAAGAGATTGGATGGGCTCCTTTCCTACATGAAACAAAGAAAAGCTTGCAGTACAGTCAGTAGCTCTACAAACTTGGATGTGATCTAATCGTATAAAACTTCCAGGTATTTTTCTCAGTAGACACTTCCAAATAGAGGGGATGTTGGAAACTATAGAAGGTTCTAAAAGTGTGTGGAGAAACTGGGAGACATCTAGCATCTTTAGATTGTTAATTCTTTCCTCTGAGGAAAGGCTGAGAGAACTGGGACTATTTAGCCTACAGAAGGGAAGGCTTGAAGAAATCTTATCAATATATATAAATACTTGAAGGGAGGATGCAATGAGTTCAGAGCCAGGCTCTTTTCAGAGGTGCCCTGTGATGGGGCAGGAGGCAGTGGGCACAAACTGAAACACTGGAGGTTCCATCTGAACATTGGGAAACCTTTCTTTACTGTGCAGGTGATGGAGCACTGGCACAGGCTGCTCAGAGAGGTTGTGGAGTTTCTCTCTTCAGAGATTTGGTGAAAATTCCGTAATTAATACATACATGGAGGAGTAGTAATTTTATTTAGTATTTGTTTTCAGTTATCATGTTGTTTTATATTCCAG
Seq C2 exon
GATCAGATGACTTGTCTGCAAAACTGTGGGATGTAAGCACAGGTCAGTGCATCTATGGTATCCAGACACACACTTGTGCTACAGTGAAGTTTGATGAACAAAAACTTGTAACGGGCTCTTTTGATAACACAGTAGCCTGTTGGGAATGGAGCTCTGGGGCAAAGACACAGCATTTCAGAGGACACACTGGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000864:ENSGALT00000001266:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF129372=F-box-like=WD(100=29.3),PF0040027=WD40=PU(68.6=14.6)
A:
NA
C2:
PF0040027=WD40=PD(28.6=15.2),PF0040027=WD40=WD(100=53.0),PF0040027=WD40=PU(33.3=19.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTCTGTTCAGGATCCTCTGCA
R:
GCACCAGTGTGTCCTCTGAAA
Band lengths:
352-1879
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]