GgaINT0125786 @ galGal4
Intron Retention
Gene
ENSGALG00000000864 | FBXW2
Description
F-box/WD repeat-containing protein 2 [Source:RefSeq peptide;Acc:NP_001007843]
Coordinates
chr17:10380193-10381244:-
Coord C1 exon
chr17:10381050-10381244
Coord A exon
chr17:10380327-10381049
Coord C2 exon
chr17:10380193-10380326
Length
723 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
AGAATGCTCTTTGCTTGTAGTTT
3' ss Score
4.46
Exon sequences
Seq C1 exon
GATCAGATGACTTGTCTGCAAAACTGTGGGATGTAAGCACAGGTCAGTGCATCTATGGTATCCAGACACACACTTGTGCTACAGTGAAGTTTGATGAACAAAAACTTGTAACGGGCTCTTTTGATAACACAGTAGCCTGTTGGGAATGGAGCTCTGGGGCAAAGACACAGCATTTCAGAGGACACACTGGTGCAG
Seq A exon
GTATGTTGTATGTCTCAGATTTTATTTTCATCAGTCAAGTAATATATGCCATCATAGAACAGATTATAATTTAAGTTAGCTTTGTCCACAGTAGTATATTTTTAAGACTCTGTCCCAGATCACACTGTGGGAGGGAAGTGGCCAGAATAGATCTAGATCTGTCTACCCTTGAATAACACCAAAGCATAGCCATATAGTGTTTTGTGGGTGTAGAAACAATACTATCATGGTGATTTAGTGCCTTAGAGTCTAGAATAAAAGATGCATACCCTGTTTATCACTTGTTAACAGGGAGCACATGACAGTGGGAGTTCTTTAAATTCCCAGCACAATTGAGCCTGGGGATCTCTGTTTGCATTTCTGTCTTAATTCTGTCCTCTACTACAGAATATCTTCAACTCAACTGTCGGTCTGTTCTCCACGAGTAATGAGATGTATCAATCGTAATAATCCTGCTGGCATTGATTTCTTAGAACTATTAGGATAGGAACTTCAACGTAATCCAGCCATAATGGAACCAATGATCTTCATCTTTTTAATTTGAACAAACAGCTGGTAATTTTGCAGTGTAAACTCACAAATAGAGAGTAATATTTTACATCTACTGTTGAAGAGCAACAGTTAAAGCTGTAATAGTCAGTGAATTTTGACCTAGTTACAGTATCACAGGAAAACAGATACACAGAGACTGTTGCTACTTTTGAGAATGCTCTTTGCTTGTAG
Seq C2 exon
TTTTTAGTGTGGACTACAATGATGAACTTGATGTTCTAGTCAGTGGCTCTGCAGACTTCACTGTGAAAGTGTGGGCCTTATCAACAGGAACGTGCCTGAATACCCTTACTGGACACACAGAATGGGTCACTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000864:ENSGALT00000001266:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0040027=WD40=PD(28.6=15.2),PF0040027=WD40=WD(100=53.0),PF0040027=WD40=PU(33.3=19.7)
A:
NA
C2:
PF0040027=WD40=PD(64.1=55.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATCAGATGACTTGTCTGCAAAACTG
R:
AGTGACCCATTCTGTGTGTCC
Band lengths:
326-1049
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]