DreINT0107449 @ danRer10
Intron Retention
Gene
ENSDARG00000030022 | nup188
Description
nucleoporin 188 [Source:ZFIN;Acc:ZDB-GENE-030131-7184]
Coordinates
chr21:4408916-4411137:+
Coord C1 exon
chr21:4408916-4409036
Coord A exon
chr21:4409037-4411070
Coord C2 exon
chr21:4411071-4411137
Length
2034 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGC
5' ss Score
9.1
3' ss Seq
CTCTCTGTTTTCTGCCTCAGGTT
3' ss Score
11.78
Exon sequences
Seq C1 exon
GGTCAGCTGGGCAGTACTCAGAGCAGAGGACTCATCCCATGTGTGCTGCTGGTGCTGAAGGAGATGCTGCCGACGTATCATAAATGGCGCTACAACACATATGGAGTGCGAGAGAGAATCG
Seq A exon
GTGAGCAAACTATACAGTATTAGGGGTCATTCACATCGAACGCGTCTTCTGAAAAAGTGCAGCGTGAGGTTCATGTGAAGTGATATTATGAGCATGATAATATGATAATAATAGTGGACCCATTAGAAATAGGAAAACAATATCATTCAGTTAGCATGTTCTCCCCATGTTGGTGTGGGTTTGCTCCAGTTTCCCCCACAGTCCAAAGACATGTGGTATAGGTGAATTGGGTAGGCTATATTGTTCGTAGTGTATGGTTGTGTATGGATGTTTCCCAATATTGGGTTGCAGCTGGAGGGAGATATATCCAGCTGCAGAACCGCAGAACCACACACGTTTCAGGCACACACAATCTAGCACACACGATTTAGGCTCCTTAGGAGCATTATCGCCACCTATTTAATTTCACAAATATGGTTTTCCATTTCAGTCATATCATTATTATATCGTAACGATCATTTTAACCTCTCTGCAGTTTCTGAACTCAAATTATGTAAATAAAAGTAATTGGTTAAAGACACTTATGACTTTATTCATGTCCACACACACGAAGAAAACATAATAGACTGTCTAATTGTAGGATTAAGTGTAATAAACTAATTCAAGATCTTAATATTATCATACTTCGTTAAAATCACTTTGTTGTAAAATATAAAAAGCACACAATAATGTGTCACATTAAAATGAACTACTATAGTTAGTCATTTAAACTGATTTTCTTAACTGATTATCTGATTATAAACTGCTATCTTTTACTAAACTGTCACAGCTGTTTTATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATAAACTTATTATTATTATTTTTAATTAATTAATTATTAATAGTTAATTTGTTTCTATTGTTAAATTTTAGTTTAAAAACAATATGTTGCTTACTATAAATTACTACAGTATTTAATGTGGGAAATCATTAATTAAAAAGTTATTAGAAAATTAAGCAAATACACACTATTAAATCGCTTGAGTAAAATATGAACATAGTGTTATACATTTATTACATGTAAAAAGATTTTAATACATATAAAATGTATTATTGCCTATATTAACTTGCTATTATTTCCTTCATTATAAATTAATCCATTATATAAATGAAACCTGTCTAATTTAGCTCTTTCAGCAAGGCTAGCAAACGAGTATCTGCTACATTGACTCTGTCAGATAATAATGACTGATCATCTATGATGAATGATCAGTCTATATTGAATGGCGATCGAAAACAACGCTCCCCATTCGCCCGTCTCGGTCGCAATATTTGTGAAATAAAGTAAAGTAAAGACTTGTTTATTGTGTACAATATTTATTACCCATATATATCAAAATATATTGATGACGATGTCCAAGAAGACGTTAATAACATTAACACCCGTCGTAACCATATATGGTTTGCCTAGAATGTGTGTGCCAGATTGTGTGAGCCTAAAACGTGTGTGGTTCTGCGGGCCTGCAGTTGGATATTATTGGCTGGAGGGGCATCCGCTGCATAAAACATATGCTGGATAAGTTGGCGGTTCATTCCACTGTGGTGACCCCAGATTAATAAAGAGACTAAGCTGAAAAGAAAATTAATAAAAAATAATACGATTTATGCAACAAAACAATTATTTACTTAGAATTTTTCTAGTTAAATATCTACATTTCAAAGCGAAAATAAGATTACTTTGCTTGCCCCACTGGTAGATAATTTTGTTTGCTTTAAGAAAAAACTATACATATCACATTTATTGCATAAAACTAAAATATTGCATTTTTCCAGTATCGTGCAGCCCTAATCCCAATGTAAAATTATAATCTAGTAGTATGTGTATTGAATTTAAGTGTTTTTTTCTGTTCTTTCTCTCTTAAAAACAATAAAGAGAACATTTAAAAACCTTTGCAGACTGTAATTACAGCTTCATTACAAACTGCAATTAAGATATTATTCCGAAATCCACATGACCTGCTTTTTAAACATCTGTCTGCTCTCTGTTTTCTGCCTCAG
Seq C2 exon
GTTGTTTGATCCTAGAGCTGGTTCATGCTATTCTCAATTTGAATCAGGAGTGCGAGTCAGAGGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000030022:ENSDART00000043431:21
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:
PF104874=Nup188=FE(4.3=100)
A:
NA
C2:
PF104874=Nup188=FE(2.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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]