DreINT0107473 @ danRer10
Intron Retention
Gene
ENSDARG00000030022 | nup188
Description
nucleoporin 188 [Source:ZFIN;Acc:ZDB-GENE-030131-7184]
Coordinates
chr21:4438714-4442080:+
Coord C1 exon
chr21:4438714-4438843
Coord A exon
chr21:4438844-4441641
Coord C2 exon
chr21:4441642-4442080
Length
2798 bp
Sequences
Splice sites
5' ss Seq
CTGGTCAGT
5' ss Score
6.6
3' ss Seq
TTTGTTTTCTCCTCTTTTAGAGT
3' ss Score
11.27
Exon sequences
Seq C1 exon
GTCTCTGCTGATGTTTTCTATGGAGAACTGCTTCTATGTGCTGGTTTCTCAGGCTGTTCGCTGTCTCAAAGATCCTGCAGTTTCACACCGAGACAAACAGAGACTCAAGCAGGAGCTGAGCTCAGAACTG
Seq A exon
GTCAGTATCGAGCATCACCATCACAAAACAATGACCAGACATCAACATGGTCCAAGTAAATCTTTGATCTATTTACTAAATCTTCTTTGTTTTGTTTTTGGGATTAAGGACTTCACTAGAAATTCACATAAAACAAAATATGGGTCATCAGCATCAGATATTATTTTTGCACTGAATAAATATAAAAGGTTTTTCTTAATGTTAATTTTAATCCTATCAACTATTTGTGGATGTGAATATAAAACTTACTAAATCAGCTTTTTCAAATATTTTCACCCAGAAATCCAAATGCTTACTTTCTCTTCACTTTCACACTATTTCTTTTTTAAATATTTACGCCAAAATGATTTGTTTTTTCTCTTATTTACAAAAAATCTTTTCAAAAATCCTTTAAGTACATTTAGGAGAAAAACTTGTGGAAGTTGAATATTGGACCAGACGCAGACTTTGAACAGTGAATGTTTTTAATATCAGCTTCAGTTGAAAACAGCGCTCCCTTACAGCAGCTCACACACGCCTCCTTGTTTTGTTATGTTCTTAGCCTTCATGAATTAACTTGACTGACGTTTGTTCTAGTCAATACGCTTATTTCACACAGCCGACATTTTAAAGAACCAAAGTGAAGCTACGGTGGGAAGAAACCCGGAAGTATAGCACCAGCACTATAAACTTTGCAGCAACATGCTGTGGACTATAAACCTCCAGCTGTTGCAGAGATTTCAAAATGCAGAAATGGTGTAAACATCACTTTAATATCAGTCAGTTCAGTTTAATTTAAACAATTAAAGGCAGATTAGGCATCAAACAACATCACGATCTGTAAGAGTAATATGCTCAAGTGTCCTCCTAGGCTACAGTTCATGGCACCAGTTAAACACTGTTTCCCTGCTTCAGCCTATGTAACCCGGTGAGCAATGAAACATTGCAGTTGTCTGTAGCACACCCTCGTTTTGTCTGTAATAGTGTTGTCCAGCTACTAAAGTTTTAAAAACGTCCATTTCCTGCTAACATTTAAGCGCGTTTATAAACATCGCTGATTTACCATAGTATTCACCAGTGCTCATCAGTTTACCGCTCTTCACCCAGTGCAAACACAGATACTGGAGCACGAAGCAGTCGTGAAGATCAGTCGAGTCATCAAGCAGATCGCTCAGCTCGTCTGTGTTTGTGCTTGATAAACAGCGGAGGGTGAACTGATGACCTTCTCGGCAAATCACAGTCATTTCTGTTGAGCACGTGAACACAATGGCAAATCAGCGCTGTTTTAAGCCATCAACAGTGTCTTAAAAGAAAAAACATTGATTTCCCGTTAACATTTAAGTCAGTATCAAGACGAGTCTAATATAGTGAAAGAGTCAGTTCAGTAAATCAAGTTTGATAAATGGCATCTAAAACTTGTGTTCGGGAAAGAAAACGTTAGCTAATTAGTGCCGTTTTCCTCAACTTAGCTGAAACTGAGCTCTGATATCCCTTTTATTTTCACCATTCATTCAGAACGGATCTTCGGGTCACTCGGAAGGCGGTGGAATAATACATTTATGTCACTTTCTCTTCGCTGATAAGATATACAGCCAGCTACACAATGTTCCAATGTTAACTCCCAACGATACTTCCGGGTTTCTTCCTTCCGCAGACTCGATTTCGCTTTTTAAAATGGCGGCCGCGTGAAATCAGTCTATTGGAACATAGAATGCCCTGATTGTGCAACATCATTGGCTTAGAGCAAAACACAAATATTACAATTATATTGATCAAATGTGAATAAAGCATTTCCACAGCTCATGTTTTTAACATGACAAATGTTATTTGGATTTTGGGGTAAAATTGTTAACGCTGTTTCTCATCATTTTCACTCCAAACTGACCTTTTCTTTTTGTTTGTTTTAGAGCAAGTTTGTTATTTCTGCAATTTACAGAATCAGTCTTTATTGATTTATTTATATCTGTATTCAAAACCAATGTTAATCATTTATTTGTCTCATTGAGACTATGATTGTGAGTAATGCATGTCTTCTGGAGTTGGTTTTGTTGTTGTTCTGATGCTGCATTCACACCAGACGCGGAACGTGCGTCAAGCGCGAGTGATTTACATGTTAAGTCAATGCAAACGCGCGAATAGACATCCTGCGGGGCGTTTGATGCGCTTAACGAGCGTTTCGCGCAAATCTCTCGATTTTGAAAATCTGAACTTAGGGGTACTTTCGCGCCACGTTAACCAATCAGAAGCTTGCTCTTGTGGGGGCGTGACTGTGACGTAAAACCTGTTGTCGGTGTTCCGAGGGAGAAATCCTCCAGCCTTCACTGACAACAGTTCATCAAACTCGGCTTGGCTCAGTCAGAAGCACCGCTGAAAGCCTCCGTCATCCAGGATCAGTTTCTGGAGGAGTTTATGAGCTCAGAGCTGGATGCACCTCTGAAAGAATGTAGTGGACACGACCCTAAACGTATCGACGCTGTTTTTCAGCCTTTATAAAGCACATTAACACTGGGATTTTATGAAGAAAATAAATGTTAGCCATTTAGCTATGAAGCTAGAGTCTTCGGGCAGACAGAAGCCTTGCCCATCACGCGAATCCGCATCTGTTCTGATGTGAATTTGACATGCGAATGAAGCGGGGTTTGACGCTTGTATGAAGCGAGTAAACTCAAATGTTCACGCGGCTATTTATGCGCGAATAGCGCGATTTATCCGCGCCTTCCGCGTCTGGTGTGAACACAGCATAAAGGTCACCTGCAGTATTAATATTGTTTCCGCTCAGTCCAGTTCATCTCCTCATCTTTTGTTTTCTCCTCTTTTAG
Seq C2 exon
AGTACTCTGTTGTCAACATTATTCCGGTTTTTCCGCCGTGGCTCTCCTTCGTCTCCAGCCAGCGGTTTGCTTCCTTCACCACAAACCAAACCACCAACACCGGGGTCCAAGGTCACGCCGGAGGGCCAGGAGCCGTTCATCCAGCTGGTGCAGGCCTTCGTCAGACAAGTCCAGCGTTAAAGATCTGAGAGAGACTGGAGGACGCCGGTTCAGTGGTGCCAAAGTTTACAGTGAGCGCATAAAGGGCCTTTTGTATTTAAACCGTTCCTTCCCTTTATTTCCTCATGACGATGATGAAAACTGTCAACACGCATTCAACTGGTTTTGTAGTTACATGTACAGTATATCAGTTCCCACAGACGTTTTGTAAGAAACCTTTTTATGTCCCGGTTGCCATATATTTGTCTTATAACCACAATAAACTGTTGAAAATCAATGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000030022:ENSDART00000043431:43
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.091 A=NA C2=0.407
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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]