GgaINT0125204 @ galGal3
Intron Retention
Gene
ENSGALG00000003830 | NUP214
Description
NA
Coordinates
chr17:6743023-6743796:+
Coord C1 exon
chr17:6743023-6743134
Coord A exon
chr17:6743135-6743639
Coord C2 exon
chr17:6743640-6743796
Length
505 bp
Sequences
Splice sites
5' ss Seq
CAGGCAAGT
5' ss Score
3.1
3' ss Seq
TTGCCCTTCTTGTGTCCTAGCAG
3' ss Score
7.55
Exon sequences
Seq C1 exon
TAATAGTCCTGATGATTTATTTTCCTTTCTTTTCTTGGCAGGTTTTGGTTCTAGCAACACAGGTTCTGTGTTTGGGCAAGCAGCAAATACTGGAGGCATTGTCTTTGGGCAG
Seq A exon
GCAAGTATTTATTGCATGTGCAGAAATAAGGGACTGTTACGTACAATGGATTTGTTTGGGGTGCTCTACCTCCTTCTAGTAGCAAAGGTGGAATTTGATGTGGTCAGTAAAAGTTGTCCCAGGCTCTGCTGAAGGTATTTGCTAATGTAGGAGGCACCAAAACTGCACCTGCGTGTTTTCCAAGGGATGTGCAGAGACAAGCATCTAATCATGGGGGAGATAAGGTAGGGATGGAGTATAAACCTGCCTTTATTTCCTGCTAAGTGGAAAGCGGAGTACTCTTTTTTATGCACTTGGACAATATAGAGCGTTTTTGAAAGGCATACTTTATTCTGTAGATGAGATGTGAGACTTCAGTCAGATTTCATTGTGTTATGTGTTTGAAGGGTCTGCTCACTGGCTCTTCAGCTCTTGGTATGCTCAGAGGGTTGGGAAAATCACCCCTGGGGGCATGTGCTGCTTTGACTTTGTTTAAATCCCCATTCTTGCCCTTCTTGTGTCCTAG
Seq C2 exon
CAGTCGTCATCTTCCACTGGAGGCCTCTTTGGATCTGGAAGTGGTGGGAGAGGTGGAGGCTTCTTCACTGGTTTGGGAGGAAAGCCAAGTCAGGATGCAGCCAATAAGAATCCTTTTGGTTCCTCCAGTGGAGGATTTGGATCGGCAGCTTCCCAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003830:ENSGALT00000006070:48
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=0.340
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
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTATTTTCCTTTCTTTTCTTGGCAG
R:
TCTGGGAAGCTGCCGATCC
Band lengths:
254-759
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]