GgaINT0125178 @ galGal4
Intron Retention
Gene
ENSGALG00000003830 | NUP214
Description
nucleoporin 214kDa [Source:HGNC Symbol;Acc:HGNC:8064]
Coordinates
chr17:6109137-6110239:+
Coord C1 exon
chr17:6109137-6109382
Coord A exon
chr17:6109383-6110065
Coord C2 exon
chr17:6110066-6110239
Length
683 bp
Sequences
Splice sites
5' ss Seq
TATGTGAGT
5' ss Score
5.56
3' ss Seq
TGAACTGTAATATTTTTTTGTTT
3' ss Score
-1.34
Exon sequences
Seq C1 exon
CAAGTTTGTCCCGATCTGCCTTCTTGTCCACAAGATACTATGAAGACTTGGATGAAGTCAGTTCAACATCCTCAGTTTCTCAGTCTCTGGAGAATGAGGATCTGCAGGCAGCGGACCAGGAAGAGGAGGCTGCTCCCATCCAAGTCCCTCGTCATGCCCCTGTGGTCCGCACTCCGTCTATCCAGCCTGGTTTGGTGGCTCAGCCTCCATCCTTTGGGAAACAACACCCCTCCTTGGGCACTCTAT
Seq A exon
GTGAGTTGCTTTGCAGTGTTTCTGCTGTTCTGCATGTGTTCCTGTCAGTGTCTTTAACCACTGTATCAATTGCCAGTGCTTCAAATCCTGGAGAAATGAGATTGCAGCAGAGAGATTTACATTGCCAAGTTCCCAGAAGCAGCTAGCAGAGTGGCATTGTAATCTTGTGAACACACTAAACTACCTAAATGCACTAAAGGACCTTGACTCACTGACTGCATTTGACAGCTTGTTACTTATAGATCATACTGGCCATAGGTGGCACTGTCTTCCTTTAGTAATTTGCCCTATTTCTTAAAATGCTGCCCCTCAAAACAGAAGGCTGAAGTACTTCTGCATTTGGTGGGTGTGCACAAGGTTAGGACTTCTGAGCCCAGAAACAGTAAAACTAAATTTGCATATACTCAGATTTCCTTGTCTGCAGAGAACTTGAACACCATAAAATGAAAAATAAGCTGTCAGTAGAAGTGACTACAACAACAAACTGAAAGTCTTCTGATGCACTGAAATGACAACTACTGCAATTTACATGCTGAATTCATTGAGTTACTCAAACTGCCTGTGCTAGAAAAGTGTCAACTGTCTTATCAGATGGAAGCTGTATAATTGTAGGAACTGTACTTTGCAAAGGCTTTCAAGTTTTCCTGATTTGAAAAGATACAGTGAACTGTAATATTTTTTTG
Seq C2 exon
TTTCCTGTTTAGTGCCTACATCTTCGAACAGAATCATCCCACAAGGGGCAGACAGCACAATGCTTGCAACAAAGACTGTGAAACATGGGGCCCCTGCTCCCACCGTCACTGTTCCAGCACCCCAGGCAGCTGCAGCGGCAGCCCTGCGGAGGCAGATGGCCACCCAGTCCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003830:ENSGALT00000006070:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.675 A=NA C2=0.797
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:
CCGATCTGCCTTCTTGTCCAC
R:
TGGAACAGTGACGGTGGGAG
Band lengths:
352-1035
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]