GgaINT0125206 @ galGal4
Intron Retention
Gene
ENSGALG00000003830 | NUP214
Description
nucleoporin 214kDa [Source:HGNC Symbol;Acc:HGNC:8064]
Coordinates
chr17:6124780-6126642:+
Coord C1 exon
chr17:6124780-6124929
Coord A exon
chr17:6124930-6126470
Coord C2 exon
chr17:6126471-6126642
Length
1541 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTT
5' ss Score
8.17
3' ss Seq
TTTGCCTCTGTTTTGCTCAGGTG
3' ss Score
9.28
Exon sequences
Seq C1 exon
ATTCTTCTAGCTTATTTGGGAACAGTGGAGCCAAGGCCTTTGGATTTGGCAACTCATCTTTTGGAGACCAGAAACCCACAGGCACTTTCAGCTCTGGTGGTGGCAGTGTGGCATCTCAAGGCTTTGGGTTCTCTAGTCCAACCAAAGCAG
Seq A exon
GTACTTTGTTAACCCACTCTCTATGAACACTTACATTTGTGTGAGCTATTTGGTGGAGCATTTTGCAGTTTATATATCTATACTAAGCTTGCTGTGTGTGCAGGAAATGTCTGTAAACAATTAATCAGTATGTGTTACTAGCATTGCTTTTTAAGCAGTAAGTAACAACCTAGTGTATTTTAGCTGGTGGATCCAAGACAGATTTACTACCTACTGTGCAGAAAAACACTAAGTAAACTGCATTTTCAGTGGTTCATTCCAGAAGTTCCCATTGTGGTTTAAAGGCAGAGAGCTGTGTGAATTAGTGCTGGTATTATTTAGCATACAATGAAAAATACAGGCTATGGAATTGAACAGATTTTTCCTCTTGTAGGTGCTTCCTTGGAAAATTATATTCCAAACTTCAGTCTGGGTTTTGTAACCCTTTTTGTTCCCATTTCTTCATGTGAATGAATGCACAGGTTTCTACTGTGGGATAGCTTCCTCCATAACATGGATATCAGACATGCTTCAGCTCCCTCTCTTGGGAAATGAGCTGTTGGTTCTATTGATTGAATTAACTTAATCAAATATAGGGAATTTCACTAAGTCTCTTCTTTTTTTTTTTACAGTCACCTGCTTCCCCCCCAATCTTGTTCTGCACTCACTATCTGCATGTTTCACTTCTCTTTCTCCACTATTTGTTAACATGAATTGCAAAAGAAAGCATATCCCTAGCAAAGCTTCAGCCCCTCCAATAAATACTCTGACTTCCTAGAGCTAGGGGTAATGAGATAGGCCTGAATTATTTAAGCACAGATCGGCTAGCGTTTATTTTTTCCAGACCTTTTGTGTTTACAGCCAAACAGTATCCATTACCTTGACATGGACTAGAATTTCACCCAGGGTATTAGAATGTGTGGTGCTATCCCAGTCCTCAGCCCTAGTCAAACAAAAGAGCAGGTGTCCTTTGCATTCCACAGTCTCAATTAGAAACAGGCCAAGAATATCAGTAAATGAACATAGAATAGTGTAGAAGTCTGTTCAGAGCTCTAGAAGGCAGTATCTTTTTTTTTATAACAATGAAAGCATCTCTGTTCCCTGTTGTATGTATGATTACTGAAACTTAGTTACTGTGCATGCTTGCTGCCTCAGTTAAGATTCTGGTCTTCATACATAAAGCAGGTAGAGATCCTGCCTCACTGTGCAAGCATGAATGATATGTTACCACCCTGGATATATTACCAGCCCTGGAGGATGAGTTGTTTTCATGTTTGCATGTTCAGAAGGCCCAGAATGTGATCTTCTGTGGGTAGTCTCTTAATTTGAATAGTGTTTTTTACGTGTATGCAGGCACTTTTCTTATCCACTTCTTTTGTAACAAATTATCCTGCAGTCTTGGAAGCTTTGTAGCAGTGAGTTTTGTTTATTTAGATGACAAACAAGATGAATGCTCCACTGTAGAGATTGTCTACTTGGAAATGTAGCTTTATTTCCTTCTTCACTGTTGTTTACTTTATATTCTTGTCCCTTTTTTTTTTTTTTGCCTCTGTTTTGCTCAG
Seq C2 exon
GTGGCTTCGGTGCTGCTCCAGTGTTTGGCAGCCCTCCCACTTTTGGGGGATCCCCTGGGTTTGGAGGGGTGCCAGCATTCGGTTCAGCCCCAACCTTTTCAAGCCCTCTGGGCTCGACGGGAGGCAAAGTGTTCGGCGAGGGTACAGCTGCAGCCAGCGCCGGAGGATTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003830:ENSGALT00000006070:33
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.275 A=NA C2=0.397
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
TTCTAGCTTATTTGGGAACAGTGGA
R:
CCAAATCCTCCGGCGCTG
Band lengths:
318-1859
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]