GgaINT1020149 @ galGal4
Intron Retention
Gene
ENSGALG00000004548 | NUP188
Description
nucleoporin NUP188 homolog [Source:RefSeq peptide;Acc:NP_001025861]
Coordinates
chr17:5423189-5424680:+
Coord C1 exon
chr17:5423189-5423334
Coord A exon
chr17:5423335-5424498
Coord C2 exon
chr17:5424499-5424680
Length
1164 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
CTGTTCCATGTGTGTCGCAGTGA
3' ss Score
7.22
Exon sequences
Seq C1 exon
CGAGTTGGGTTCTGTGGATAAAATCATAAACTCCTTGACGCAGATTCTGGAGGGAGTACTACAGGCAGATCAGCAGATGATGGAGAAAACCAAAGCCAAAGTGTTCTCAGCTCTTATCACTGTGCTGCAGATGAAGGAGATGAAAG
Seq A exon
GTGAGATTCTGTATGTACAAACATCAAGAGCAGTGCTGCCATGGCTGAATGCATGATTAACACTACCGTGTTTTCAGCATGAAAATGTGTACGATGTTAGATGTAGTACAAGATGTAGAATATAGCTGCTAGCTTCTGGGACACCTCCACTGTTTAAGCTTTGTTTTAACTAGCTTTGGGAGAGATGAGGTGTACTGTTCACCTCAGGCATATCATTCACAGTGTGCATGTCTTCTTGTCTTGTCTTTTCCTAACAAGAACCCCTATGTTTGATCAGTTGGATGGAAATGAAAGTAGAGTTTTGGAGTGTTTTTGAAGACAGCTCTGTGGATGTGGGAGGGATACCCCAGTACTGCTGTGTCACCGAGACACCTTAGGTTGTGACATTACTTTCTACAGATAACAAATGACACAAACCCAAGGAGGGTGTGTTTTGTTAAACAAAACAAAAAACCCAACACAGTGACTTTGTTACTTCAGTCCTTTGCAGGACTGTTTACACTGTAGTAGCATTTAACACAATGGAATCTAGGCAGTATTTTTCTGTGCTGTGCAACTAAGATACAAAGGCACTGTGACGTTGAGGAGTGTCTCAGTTTACCTGATCCGAGTGCAGTTCCTGTCCCACTGCCTGGCCCTGCAAGCCTTTGTTGTTCAGAAGATAAACAAAGTGGAGAATTATTACTATTTTTTAACATTTGCATTTGGCGATGAATTTGAATTTGTAGTCATGGCAGTAGAAGGTGGTGCAGTTTGTTGTGATGGTTTTCATGAGAATGTGGTGTTTATACAGCTCATGGACAGCAGGCTGCATCCATGGACTGGTGCCAGCAATCTGGAGAAATGGGTAGGCAGTGCTGTTGGGAGCAGCTACAGAATGGTCAGTCCATAGCAGTGCTTGCTTTCTGCTTTGAAATGTAATCATCTGATAATGACTTCTTGGGAAAATTATGTTTTATATGATTCAGATGGTGATCTTGTAACTTATTATATCCCTCTAGCCTTATTCATCTAACTTGGTTACAATTCCTCACATTCTATCTTTTGGGCTCTGCAATAAAAACAGTAATATTAACTCCAAGGAGTGTATCCCAGTGATATTACCAGTTAGACCTAAGTACAGGGTCGGTGTGCTAACTGTTGTCTGTTCCATGTGTGTCGCAG
Seq C2 exon
TGAATGAGATCCCTCAGTACTCCCAGCTGGTGCTGAGTGTGTGTGAAACTCTCCAGGATGAGGTCATTGCACTCTTTGATCAGACTCGACATAGCCTGACCTTGGGGGATGCCACAGATGACAAGGACAGCATGGAAACAGATGATGCCTCCCGAGTTAAACACAAGGACCAGCGAGATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004548:ENSGALT00000039668:33
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=0.279
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:
CGAGTTGGGTTCTGTGGATAA
R:
CATCTCGCTGGTCCTTGTGTT
Band lengths:
326-1490
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]