GgaINT0048541 @ galGal4
Intron Retention
Gene
ENSGALG00000012574 | WDSUB1
Description
WD repeat, SAM and U-box domain-containing protein 1 [Source:RefSeq peptide;Acc:NP_001026434]
Coordinates
chr7:36031359-36033040:-
Coord C1 exon
chr7:36032900-36033040
Coord A exon
chr7:36031558-36032899
Coord C2 exon
chr7:36031359-36031557
Length
1342 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
TGATGATGGTTTCTTTGCAGATG
3' ss Score
9.36
Exon sequences
Seq C1 exon
AGTCTCTTGGCCTGCGCAGTAAAATCCTCCAGAAGATCGAAGAGCTGAGGATGAAAATGGTCTCTGTTTCTGTTGCTGTTCCTGATGAATTCTTATGCCCTATAACACGGGAGCTCATGAAGGATCCTGTCATTGCAGCAG
Seq A exon
GTATGACTTTGAGCAATGTTGAATAACGTGAATGTCTTAAGGGTAAAGATGGATATGGGAACACAAAAATTGGGCATATCTGTCTACAATGAATAAGATAAATTAGTCTATGTAGCTATTGCAAGGAAACAACTGTGGGAAATCTTTGGCCAAACTGCATCTGTGAGAGAAAAATGCAGCATCATGTAATTCCTTTAGTATCAGCTTTACTGACAAAACCATATAGGTTATTTTTTAATGCTCTTTTCTTTTTGTGCCTTTGCAAGTATAAATTTAAATCCTAATTATTAGAGTTGTCTCTGTAAATACACAATGGAATTGTGCATGAGGGAAACAACAGCAAAAACACAGGCTCATTACTAACTTTACACAACTGTATATATGGCACTTAAAAGGTTGTACAGAAGGTCAAATATCCCACCAGTTTTGTGGCTTTGTTCCTCTCTTTTAATGCTTTAAGAAGAAAAATTGCAATTAGAATGTTTTGTTACTTATATAATTACAATACTGTATGTTTTTCAAGGGCTGCTCCAAAAGCAGCACCTCCTGTTTTGTTTTGTTGGTCCATAACGTAACAGGCAGATGTTGGTGGGATGGCAGTAGAGGTTGAACCTTCCTACCAATATTCCATTATGTGTTGTTGCCGTGACAGATGGCAGCAGAGTGGGAGTCTGATCAAATGGTGTCTGACATGGAAGTGCAGATGAAACAAAGCTGTCACTGAATTCCTTCAGGTGAAAAAAAATGACACCCCTGACATTCATCAACACTTGCTGGAAGTTTATGAAGCCCATACAGTGTTTGTGAGCACAGGGAGGCAGTGGGTGGTGCGTTTCAGCTGTGGTGACTGGGTCACCTTGGCTGGCACAGATTTTTATAAGCATGGCATGCAGGCTCTTGTGCAGTACTGGTGAAAATGCATAGCTAAAGGTGGTGACTATGTTGAAAATCAAGTAGTGCTATTGTGCTCTTAATAGCTGTTGTAGTTCGCATTGAAATAAGGAGGCATTACTTTTGGAGCAACTTACTAATGTATACATGGCCCACAACAGTTCTTACTAAATCAAGCCCAGGCAAGTCAAAGGTTGGTTCAAAAGAGACTGAACAATTTCATGTGTCCTGTGTCATCTCCACTCCATTATTTACTGCAGGAACTGAATTTTGATCTCAATACTGCTGTATAAACTGTTACTGTAATAGACTCAACTACATAATTTTTCTACATCTCAATTCTCTTATTTAGAAATACTGATTCCCTTCTATCTCTTACATATGTAAAATATATAGTGTAACAGTGCCCCATTGTCTGTAATGCAAGATTTTGATGATGGTTTCTTTGCAG
Seq C2 exon
ATGGGTATTCCTATGAAAAGGAGGCAATGGAAAATTGGATCAGCAATAACAGACGATCTAGTCCCATGACAAATCTTCCTCTTCCCAGTCTTGTGCTTACACCCAACAGGACACTGAAAATGGCTATCAGCCGCTGGCTGGAGACTCAGCAGAAACAAGGCGAAACCACTTTGCTTTGAACTTGTTCACTAAAATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012574:ENSGALT00000020533:10
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=0.169
Domain overlap (PFAM):
C1:
PF0764712=SAM_2=PD(24.2=33.3),PF0456410=U-box=PU(28.8=43.8)
A:
NA
C2:
PF0456410=U-box=PD(69.9=85.0)
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:
CTCTTGGCCTGCGCAGTAAAA
R:
TGAACAAGTTCAAAGCAAAGTGGT
Band lengths:
326-1668
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]