GgaINT1020206 @ galGal4
Intron Retention
Gene
ENSGALG00000003830 | NUP214
Description
nucleoporin 214kDa [Source:HGNC Symbol;Acc:HGNC:8064]
Coordinates
chr17:6115214-6117078:+
Coord C1 exon
chr17:6115214-6115316
Coord A exon
chr17:6115317-6117004
Coord C2 exon
chr17:6117005-6117078
Length
1688 bp
Sequences
Splice sites
5' ss Seq
GGGGTCTGT
5' ss Score
0.78
3' ss Seq
TTTCTCTTCTTTCCTCCTAGGTC
3' ss Score
12.95
Exon sequences
Seq C1 exon
GACAAGGGACAGCAAAAACCGTTACAGCTGTGACCTCTACAGTGGCGTCAGTACCAGCAACATCTGCACAGCCTAACAAGGCTTTCTCATTTTCTTCTGTGGG
Seq A exon
GTCTGTATGAAGTTCAACATTTCTTTGTATTTGATGTTTGTGTGAATATATCAGCTGTTACAGCAAGCGTTACCTACAAGCTGTAGAGTACTGTAAAATGACACCATAGATAGTTTTAAACTCTATTCTTCATTTAGAGGAAAAAAGAGCAGTTGCAGGAAGATCGTCCCTAGTGAGTTGCACAGAGAGAAGTCTTCACATGTGAGAATGAATTTTGACTTTACAGTGGCAAGTGGAAAGGTTGAACTTTGGAAGCTTCCAATTTCAGAGAAAAATGGGGAAGAACCTGAATAAGATCATTTTAATAATCCTTCTGAAGATTGATTCCAAAGAGAGTAATGTAGTGTTTTCTAACCTGAACATACCTATGCAAGTTTCCAATGTCAGTGGAAGTTTGAGATACAGAAGTGCTGGAGTTTCCCATTAGGGCTTGAAATTTGTGCTGATGGTCAGTCTTGCTGAATTACTTTTTTTATTTTGAAACAACAGAACAAACTCCATGTTGTGGCTTGAAAAGTATTCTATTCATGAGAGTGACTGAAGAGTCACCATGCCATCTGGTGGTTCCTGTCATGTAACAGTAATGCAAAGCAAGGCACGTTGTATGAACATGTAGTGATTCTGAAACCTCTCTGATGGAGTGTTTTTCAGGGATGGAAAAAAGATATTTCTTTGGTCATATAGTATCTTTGATAAAGAAGAGTGGCTCCTCACAAAATTGTTTGAATTTCTCCGTATTTAAGTATCTAATATTGAAGTGAGTTTCTCTTTATGAAGCAGGTAACACTAAGTATTTCAGAACACTCATACTTTCAAACAACTATTTTCATTCAGTCTTAAACATTTCTATGTTAGTTGTCAAGTGGATGTTATCTACATGCCTTGTAGTACTCTCCAAAAGGCTAAAACAGCCTTCTTGAAACACTGAAATTCAGATTCAAAAAGCAAACAAACCCTGCCTTTGTCCCAGGCTGCAGTGCTTCACTCTATAAACCATGTGATAAATACAGCACTGTTGTCTGTGATGTCTTAGTTATGCAGCCTGACTACTACATCAGCAGCTGGTCCTTGAGAATCAGAGGACAAGGCAGTGAGAAGGCTTAAAAAGCCTCAGGGGATGAAGGTCTCTGGAGCACCCCATTGCTCATTTTGAAAGATCACAGCATTTTGTAAGACACAATTTTTTTAGTGTTCAGCAATCATGGAAACTTTAATTTTTGTCTTGCTGTGAGTGATCTCCTTTTCAAGGGATGGCAGTGTCCACTTATTCCTGCCTGTACATGCACTCTCTTACCATTCCAATCTTCTAATTTTCAATAAGCTCTGGTCACTGCTATAGCTTCTGCTGTTGCTGGTCTCCCAGGAGTTATAATTGTTTGGTGTGTGGTGTTTGGCTGCTGAGCTGAATGGGGAAGAAACATACAGCAGAAACAAAACAATATGAGAGGATGAGGGACAGCTGAAAGGGTTTTGAATTCTGACTCTCATCAACCCTTCAAGAAAATTTGTCAGAGGGGAAACAAATGTCTAGTTGGAGAAACTGTTCTTGTGCATGTATGCCTGTGTGTCTGACCTAATGCCGACTTGCACAGGAAATCTGAGTCTGAAGGTTGTGTTAATCATGGGGTTGGAAATTTCAGTGCTTTGAGCTCAAAGTCATTCTTTCCCTTTCTCTTCTTTCCTCCTAG
Seq C2 exon
GTCTGGGTTTAATTTTGGTGTTGTCACGTCGGCTGCTTCATCACCGACACTGCCCAGCCTTGCTGCCTCACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003830:ENSGALT00000006070:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.486 A=NA C2=0.385
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]