DreINT0107442 @ danRer10
Intron Retention
Gene
ENSDARG00000030022 | nup188
Description
nucleoporin 188 [Source:ZFIN;Acc:ZDB-GENE-030131-7184]
Coordinates
chr21:4401301-4403980:+
Coord C1 exon
chr21:4401301-4401427
Coord A exon
chr21:4401428-4403806
Coord C2 exon
chr21:4403807-4403980
Length
2379 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
3' ss Seq
AGCACTGTCTGTATGTTCAGGTG
3' ss Score
6.98
Exon sequences
Seq C1 exon
GTGTACACCTTCTTAGATAAGATGTCGTTTTACACTGAGGCCTATAAGCACCGACCCAATGATGTGATCTCCAGAGAGGACGGCACTCTGTGGAGAAGACAGACTCACAAACTACTCTACCCTCTGG
Seq A exon
GTAAGTCAGCACTCAGCACGTGTAGTTTACCTGTGTTTCTGGCATCTCTTGCCTGATTGCTTGATTACACAACCTGAATTCTGTACAGTTGATCTTCTATAGCGCTTTTTTTCTCTTCTGACCCGGTTGTGGTATTGGTCAGATGAATTTCCACTAGTTTTACCTCCTTTTCTTGAGTCCAAATAGACTGAAAATGAGCGCTTTTAACTTCTCCCCCAACCTCCCGCTGGCCTGCAGATACACACTCTAGTGGATGCTGCTCTCTCATTGGCTGTAGGTGATCACCGATGTTATTTTCAATCAGAACACATTTCACACGACATGATTTTGAATCACCGACAGCTCCAGATATTTAGCATGCCAAATATCTATGCGACTTTGCCGATTCTCTCAGATGGCATTCTTGATAGTTCACACTGTGTGATTGTTACTCACAGAAACGAGCGTCGATTTGCCTGTGATTTAAGGGTCAGTGTAAATTTTGGTCATTGGATTTTCATTTTAGAAATGGATATTGAAAAACGAAAAAACAAGACGTTTTTTTATTTTGGTTTTTGAATTTTGAAACGAAAATCAGAAAACGGCTCATTTTTCTTTTTGATGGTGAAAAATGGAAAACCAAAATTCAAAAATGATTTGATTTTTATTTTTTATTTTGAATAACAAAGACAGGCTAGCCTATAGGCTATTATTTCTTTCCACCTAATAATGTTATACAAGGTATTTTCGTGTGATAACAGGATTTTGTTAAGACATAATTTTCTCATTAAGACATAACATATTTCTCGTATAAGGGCCGGTTAAGACTATATATTTATTTTTTGTTAGCATGTTTTGAATGAAACAACCTTTTTTGGTGTTAAATGCAAGCATTAGGTTGCTTTACTGAACACTTTTCTGAAAATACAGTTTTAATATTGTTAAAACCATAATACTTCCTCTTCCCGAAGTTTGACCACGAATCATTTCAAGTGAGGGAGGTATTAATGCAGTTGTTCGTTACGCACATTTCAATGCGTCATAGTGTTTTAAAATAAAAATTAACAATGAATTTTATCTATAAGGAGGCATGCTGCACAAACATCCTGATAAGCATCCCGTGTCTTTTAAAAACGGACTATCACTGAGCTTGCAGATGAGTTGTGTGCACGCGTCATCCCCCCGCTACAGTGGGGGTCTATCCATAATTTAATATAGCCATGTGAAAATTATAGCAACCGATTTTTAATACAGAAATTGAAATTATAAAAAAATAACCTACTGCTATTATATATTATTATATTACTATAACACGGAGAGATGAGCAATGATTCCAATGTTAATGTCACTTCTGAAGTGGAAAGGATTTTAACAAACTTTATTTTCAGAAAACTGTTTTGCAATGCAAATACTGCATATATCGTTAATGTTATGTATAACCGGCTTCAATGAGGAAAATATGCCGTAACTAAATCCTGTTATCACAAGAAAATACCTTTTATAACATTATTAGGTGGAAAGAAATAATAGGCTATTCACCTTATTCTCTGCAGACGAGCGGGCGCCGCCATTTAAATCTTTTTGGCTTGAGACTTCCGGTCTCATTCACTTCCATTTATTTTTAGACATTAAAAACTGCTCATTACGCTGCTTGATGTTGCAAACTGATATTTTCTTGTTATATTATTCTACTTGGTCTGTATAGTCATGCAAACATTTGTTTGTAGAGCAAGTAGTTTGACCGTTTTCTGCCGTTTATTATTCCTAGTCATTTCTCCCATAGGCGACTGAATCGGAAGTTCTAAGACAATCGCGAAAACAGGCACACTTCCTTATTTTAGAATAAGGTCTATAGGCTAGCCTGTGTGTGGCAGCATTGCATCACTGTAAATGAGTCGGCCTATCTGGTTTCAGAATATAAAAAAACAAGTCTTTATTCGTTTTTGTTTTCTGGTGATTTTATTTTTTGCTATTCAAAATAAAAAATGAAAATCAAATCATTTTTAAATTTTGGTTTTCCGTTTTAACCATGAAAAAGAAAAATGAGCCGTTTTTTGATTTTGTTTTCAAATTCAAAAACCAAAATTAAAAAAAAACTAATTAAATTTCAGTTTTCGTTTTTTAATTTTAAAACAAAAATTAAAAATTGGCTTGTTTTTCGCTTTTCAATATCCATTTCTAAAATGAAAATCTAATGAACAAAATATACACTGACTTTTAAGGCATTTGTATGCGATTTCTCATAACCTGTCGGCGAAATCAGGGCTAAAATCATGCAGTCTTAACTCCGCATTAGTTGCTTTTCAAGTAATTGGAGAGGTTATTTAAATACAGTTTAATTATAGTTAGTGGCAAATGACTTTTTTGAAGTAACTTGCCCAGCACTGTCTGTATGTTCAG
Seq C2 exon
GTGTGGGCCAGACCAACCTGCGGATGCCTCAGGGGTGCTTTGGCCAGGTGTGTGAAGGAAAGCAGCTGTCTGTGGGTGAACAGGGTTTCCTGGTGCGCTGGGAATATTCCTACAGCTCCTGGACTCTTTTCACCTGTGAGATCGAGATGCTGCTGCACGTCGTCTCGACTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000030022:ENSDART00000043431:15
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(4.6=100)
A:
NA
C2:
PF104874=Nup188=FE(6.3=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]