GgaINT1020151 @ galGal4
Intron Retention
Gene
ENSGALG00000004548 | NUP188
Description
nucleoporin NUP188 homolog [Source:RefSeq peptide;Acc:NP_001025861]
Coordinates
chr17:5425017-5425985:+
Coord C1 exon
chr17:5425017-5425217
Coord A exon
chr17:5425218-5425892
Coord C2 exon
chr17:5425893-5425985
Length
675 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
GTTTGTTCTGTGCCTTGTAGGGA
3' ss Score
9.03
Exon sequences
Seq C1 exon
GTTTGTGTTTTGGGTCTGCATCTCGCAAAAGAGCTCTGTGAAGTTGATGATGATGGAGACTACTGGCTGCAGATTACTAGGAAAGTCCCTGTGCTTCCTACCATCTTTACTGCTTTGGAGATCAGCCTGAGAGTTAAACAAAACCTTCACTTCACAGAGGCCTCGTTACATCTGCTGCTGACCTTAGCAAGGACGCAGCAG
Seq A exon
GTGAGAAATGCAGAGAAAAGAAAGCATATAGCTATACATTTTTAATAGGCTCCGTGTATCTCATTATTGTGCCTCTGATGCAGCTGCACAGTGATCTGTAGATAAAGGGGTTGTTAGAAGCTGGCAAGCAGTAGGTCCTGTCTTTACGCCTCCCTATTTTGCCTGCTTCTTCTTTTTAATGGGATGTCTCAGACAGAAGATCTGAGGCAGCCAGAGCAGACCTGTAATTTAGAACAGGCACTTTCACTGAATGTGTTCTTCTGCAATGCAGATTATTCAGCCTGTTTAAAACAGTATTAAGTGTTGGAACCTGGTTTCTCATTACTTGTGGTAAAGCATTACTTATCTATTACATATTCAACTTAGTGTAGGGCTTTAAGTGAAATGAAGGCCATTCCAAAGCTAGCTCTTCTCAAAGATTAGGTATTTACCATACCAGCTGATGTGGAAGTGGAATTTACAGTACAGCTGTGCAGGTTAGATTTTATTGCAAGAACAGTGTTGCTTTTCTTGCTGCTAATTTTTTAGCAATATGGAAGTATGTGCAACAAAGGTTCTCTGAAAGGGTGGTGGCAGTGCAAGGGACAGAAAAAGGTAATGCTGAAGGAGCCTCTTCAGTCTTAGACCAGCGAGAAGCCTGCGGATTTTAATGGTAGTTTGTTCTGTGCCTTGTAG
Seq C2 exon
GGAGCAGCAGCAGTGGCTGGGGCTGGTGTCTCACAGAGTGTCTGCCTGCCCCTCCTGAGCGTGTACCAGCTCAGCACTAATGGAGCCATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004548:ENSGALT00000039668:35
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTTGTGTTTTGGGTCTGCATCT
R:
CTGAATGGCTCCATTAGTGCTGA
Band lengths:
294-969
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]