GgaINT0125203 @ galGal3
Intron Retention
Gene
ENSGALG00000003830 | NUP214
Description
NA
Coordinates
chr17:6742797-6743134:+
Coord C1 exon
chr17:6742797-6742873
Coord A exon
chr17:6742874-6743022
Coord C2 exon
chr17:6743023-6743134
Length
149 bp
Sequences
Splice sites
5' ss Seq
ATTGTCAAT
5' ss Score
-11.82
3' ss Seq
TGATTTGCCTTCTATCCTAGTAA
3' ss Score
6.52
Exon sequences
Seq C1 exon
TTCTCTCATACTGGTAGCAACAATCTCACAAGTCAAAAGACCTTTTGTTTATTTTTGAATTGGCTTTCAAATACATT
Seq A exon
GTCAATTGAATTTAGTATTTGTTGGCACACTTTAAATTTTACCAACCTAGATACCTCTGTATCATTTGTATCCTGGTGTTTTGGCACAGGAGATCTGTCCTTCCCTGTTCTGGACTAGTATTGCCTCCCTGATTTGCCTTCTATCCTAG
Seq C2 exon
TAATAGTCCTGATGATTTATTTTCCTTTCTTTTCTTGGCAGGTTTTGGTTCTAGCAACACAGGTTCTGTGTTTGGGCAAGCAGCAAATACTGGAGGCATTGTCTTTGGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003830:ENSGALT00000006070:47
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
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCTCTCATACTGGTAGCAACAA
R:
CCCAAAGACAATGCCTCCAGT
Band lengths:
186-335
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]