GgaINT0125198 @ galGal3
Intron Retention
Gene
ENSGALG00000003830 | NUP214
Description
NA
Coordinates
chr17:6740224-6740797:+
Coord C1 exon
chr17:6740224-6740299
Coord A exon
chr17:6740300-6740690
Coord C2 exon
chr17:6740691-6740797
Length
391 bp
Sequences
Splice sites
5' ss Seq
AAGGCAGGA
5' ss Score
1.7
3' ss Seq
CTTCTTTGTATAACTTACAGGAC
3' ss Score
8.47
Exon sequences
Seq C1 exon
GGTGACAGTTTAGAGAATGAAGACCCTGAGGAGAAGAGATCTGCCTCCACTGAGAGGCTGCTGTGCCTATCTCAAG
Seq A exon
GCAGGAATTTGAACTGATAAGGTACAGAGGAACAGGAATGCAGTGTTGTGTACAACTCTGTAGTCTGCCTGTGTGCCTACATCTAGGATTTAGTGATTCCTCTTTCAGAGCGGACTCAGAATGTGCAACTTGTAACAGCAAGCATTGAAAAAGCATCTAAAGATGGTGACACCTGTCTTTCCTCTAATTAGATATGTTGTTGCCTTCTGTCTTTGAAGTAATTCATGTGCTCTGTGATGATGTAACAACAGCAGGAATGTTTCTATGCACTTCGTTCTTTGTTTCCAATTGAAAAAACTGTAGGCTCTGCCCCTAAACTCTTCTGTTGTTTTTTGGTAGTTGGATGATGTGAACTGTCTTTTTTTGTAATGCTTCTTTGTATAACTTACAG
Seq C2 exon
GACAAGGGACAGCAAAAACTGTTACAGCTGTGACCTCTACAGTGGCGTCAGTACCAGCAACATCTGCACAGCCTAACAAGGCTTTCTCATTTTCTTCTGTGGGGTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003830:ENSGALT00000006070:42
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.769 A=NA C2=0.222
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGACAGTTTAGAGAATGAAGACCC
R:
AGACCCCACAGAAGAAAATGAGA
Band lengths:
183-574
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]