GgaINT1020159 @ galGal4
Intron Retention
Gene
ENSGALG00000004548 | NUP188
Description
nucleoporin NUP188 homolog [Source:RefSeq peptide;Acc:NP_001025861]
Coordinates
chr17:5429399-5429926:+
Coord C1 exon
chr17:5429399-5429469
Coord A exon
chr17:5429470-5429796
Coord C2 exon
chr17:5429797-5429926
Length
327 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
ATCTGCATTTCTTTGCACAGGTC
3' ss Score
9
Exon sequences
Seq C1 exon
TTGGATAAGAAGAAGGAACCTTTTCCTCAGGCTGCAGGGCTGAATATGCAAGAGGGAACCAAAACCCTCAA
Seq A exon
GTAAGTTTCTAGATCTTTTATTTAGCTGTGGCCAATTGCAGAACCCAGTGCTCCTCAGGTCAGAACTGAGATTTATAGGTATTAGGGTAGCTTCAGAACTTCTCACTCTGAACGACAAGAGTTCAGCTGCCTGTTAGAAGCTCTCCAAAGCATGCAGGGCAAGTGGGGGCTTCTGCCCTGTAGACAATAGCTTTTGTTGTCGTTGCCTGAGCCCAGTCTGAGCAGCAGCAGTGGTCCCTCCTATGTACTCTAGATGAAGTCCTTCTTAGGCTGTGTGATCTGAAACTGGGATATTCGGCTCCTGCTGATCTGCATTTCTTTGCACAG
Seq C2 exon
GTCTCTGCTCATGTTTACAATGGAAAACTGTTTCTACCTGCTCATCTCCCAGGCCGTGCGGTACTTGAGAGACCCAGCTGTGCATCCTCGCGATAAGCAGCGGATGAAACAGGAGCTCAGCTCTGAGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004548:ENSGALT00000039668:42
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.292 A=NA C2=0.250
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:
TTGGATAAGAAGAAGGAACCTTTTC
R:
CTGAGCTCCTGTTTCATCCGC
Band lengths:
191-518
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]