GgaINT1020146 @ galGal4
Intron Retention
Gene
ENSGALG00000004548 | NUP188
Description
nucleoporin NUP188 homolog [Source:RefSeq peptide;Acc:NP_001025861]
Coordinates
chr17:5421619-5422370:+
Coord C1 exon
chr17:5421619-5421814
Coord A exon
chr17:5421815-5422292
Coord C2 exon
chr17:5422293-5422370
Length
478 bp
Sequences
Splice sites
5' ss Seq
CATGTAAGA
5' ss Score
5.58
3' ss Seq
TTTGCTTTTGTGGATCTTAGGCG
3' ss Score
7.61
Exon sequences
Seq C1 exon
GGGCTCCCTGGATCAGTCCCTGAAAGACACGCTGAAGAATTTCTCCACCAAAAAGCGCTTTGCTTATTGGTCAGAATACGTGAAATCACTGGCATATTATGTGGCAGAGACAGAGGGCAGTAGCTGTGCCTCCATGACAGAATATCAGATGCTCATCTCAGCCTGGCGGATGCTGCTCATTATATCCACTAGCCAT
Seq A exon
GTAAGAGCTACCCTTGTGGGTTTTTTCTCTTTATCTCTCGTGATAATCTGATATTAACACTTTGAATAATGCAGTGTCAACTTCTCAGGGATTAGCTACACCATAGTGAAAATCCATTGTTTATTTCCTTTCAGTTATTACATATATGCACTTAGAACACAAGTTGGCACAAGCATGGTGTAGGCTTAGGTAGTTAGTGTTTTGTCTGTCTGAGCATGGGGGAGCGGTATACAATTTTTATAGCAATTTGAAGTAATTGTATAGTCCTGAAGAGATTTTGCTTAGTGAAGTGAATGGCCCAGCAGGGAAATTAGCCATTGCCAACTTCGTTAACAGTGATCTCTGCAAAATCGTATCGTTGAGTGGATGCAAAATTTGTCAAATTCTTCAAGTAACAGAGCAGAAGGCTGATGCTAGAGAGGAAAAGAGGGTGTATCTTTTGTTTTGTTTGATTGAGCTTTGCTTTTGTGGATCTTAG
Seq C2 exon
GCGGATATAATGCATCTCACTGATCCTGCAGTTCATCAGCAATTGTTTCTGGATGTGCTAAATGGGACCAAGGCTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004548:ENSGALT00000039668:30
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:
CTCCCTGGATCAGTCCCTGAA
R:
AAAGCCTTGGTCCCATTTAGCA
Band lengths:
270-748
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]