GgaINT0125206 @ galGal3
Intron Retention
Gene
ENSGALG00000003830 | NUP214
Description
NA
Coordinates
chr17:6746024-6747888:+
Coord C1 exon
chr17:6746024-6746173
Coord A exon
chr17:6746174-6747716
Coord C2 exon
chr17:6747717-6747888
Length
1543 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
GTACTTTGTTAACCCACTCTCTATGAACACTTACATTTGTGTGAGCTATTTGGTGGAGCATTTTGCAGTTTATATATCTATACTAAGCTTGCTGTGTGTGCAGGAAATGTCTGTAAACAATTAATCAGTATGTGTTACTAGCATTGCTTTTTAAGCAGTAAGTAACAACCTAGTGTATTTTAGCTGGTGGATCCAAGACAGATTTACAACCTACTGTGCAGAAAAACACTAAGTAAACTGCATTTTCAGTGGTTCATTCCAGAAGTTCCCATTGTGGTTTAAAGGCAGAGAGCTGTGTGAATTAGTGCTGGTATTATTTAGCATACAATGAAAAATACAGGCTATGGAATTGAACAGATTTTTCCTCTTGTAGGTGCTTCCTTGGAAAATTATATTCCAAACTTCAGTCTGGGTTTTGTAACCCTTTTTGTTCCCATTTCTTCATGTGAATGAATGCACAGGTTTCTACTGTGGGATAGCTTCCTCCATAACATGGATATCAGACATGCTTCAGCTCCCTCTCTTGGGAAATGAGCTGTTGGTTCTATTGATTGAATTAACTTAATCAAATATAGGGAATTTCACTAAGTCTCTTCTTTTTTTTTTTACAGTCACCTGCTTCCCCCCCAATCTTGTTCTGCACTCACTATCTGCATGTTTCACTTCTCTTTCTCCACTATTTGTTAACATGAATTGCAAAAGAAAGCATATCCCTAGCAAAGCTTCAGCCCCTCCAATAAATACTCTGACTTCCTAGAGCTAGGGGTAATGAGATAGGCCTGAATTATTTAAGCACAGATCGGCTAGCGTTTATTTTTTCCAGACCTTTTGTGTTTACAGCCAAACAGTATCCATTACCTTGACATGGACTAGAATTTCACCCAGGGTATTAGAATGTGTGGTGCTATCCCAGTCCTCAGCCCTAGTCAAACAAAAGAGCAGGTGTCCTTTGCATTCCACAGTCTCAATTAGAAACAGGCCAAGAATATCAGTAAATGAACATAGAATAGTGTAGAAGTCTGTTCAGAGCTCTAGAAGGCAGTATCTTTTTTTTTATAACAATGAAAGCATCTCTGTTCCCTGTTGTATGTATGATTACTGAAACTTAGTTACTGTGCATGCTTGCTGCCTCAGTTAAGATTCTGGTCTTCATACATAAAGCAGGTAGAGATCCTGCCTCACTGTGCAAGCATGAATGATATGTTACCACCCTGGATATATTACCAGCCCTGGAGGATGAGTTGTTTTCATGTTTGCATGTTCAGAAGGCCCAGAATGTGATCTTCTGTGGGTAGTCTCTTAATTTGAATAGTGTTTTTTACGTGTATGCAGGCACTTTTCTTATCCACTTCTTTTGTAACAAATTATCCTGCAGTCTTGGAAGCTTTGTAGCAGTGAGTTTTGTTTATTTAGATGACAAACAAGATGAATGCTCCACTGTAGAGATTGTCTACTTGGAAATGTAGCTTTATTTCCTTCTTCACTGTTGTTTACTTTATATTCTTGTCCCTTTTTTTTTTTTTTTTGCCTCTGTTTTGCTCAG
Seq C2 exon
GTGGCTTCGGTGCTGCTCCAGTGTTTGGCAGCCCTCCCACTTTTGGGGGATCCCCTGGGTTTGGAGGGGTGCCAGCATTCGGTTCAGCCCCAACCTTTTCAAGCCCTCTGGGCTCGACGGGAGGCAAAGTGTTCGGCGAGGGTACAGCTGCAGCCAGCGCCGGAGGATTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003830:ENSGALT00000006070:50
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.235 A=NA C2=0.483
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:
318-1861
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]