RnoINT0104226 @ rn6
Intron Retention
Gene
ENSRNOG00000025185 | Nup188
Description
nucleoporin 188 [Source:RGD Symbol;Acc:1306022]
Coordinates
chr3:8883272-8887503:+
Coord C1 exon
chr3:8883272-8883398
Coord A exon
chr3:8883399-8887350
Coord C2 exon
chr3:8887351-8887503
Length
3952 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGA
5' ss Score
9.14
3' ss Seq
CAGGCATTTCTCTTCCCTAGGGG
3' ss Score
8.84
Exon sequences
Seq C1 exon
GTGTACAGTTTCCTAGATAAAATGTCTTTCTACAATGAACTTCATAAGCACAAGCCCCATGACGTGCTCTCTCACGAGGATGGAACGCTGTGGCGGAGGCAAACGCCCAAACTCCTGTACCCTCTAG
Seq A exon
GTAAGACGTGCTCTGCACACCCCTGTTTCAGGGGACAGTTGGCCCTGATGCTGGCTGCATTCTCTCACAGGAGTGCCCATGAGGCCCTTCCCCGTCTTCTCACTCCCTGTTGGTTCACTGAGTGCTGAGCGCCCCAACTCTGTGCTCGCTCGCCCCTCCTTCCTGGCTTCTTCGCCTTTTCTTCTTTTTTCTCTTTGCTGTTTGTTTGCTCTTTGTTTTCAGGGCTTCTTATCTTGCTAGTAGTCCACGCCGGCTCACAGTACATGATTTCCCTACTGCATTCTGAGCTTCTGCCTTTCTTTTTCTAATCACTGTTTTTGCATCACTGGTTTCTCTTGCTCTGTTTATTGTTGCTGTGCTGTAACGAGGTCAGCAGGACAGGTCTGCGTCACACAATGGGTGAAGGATCTGGTGTCTCCCTTCCACAGAATCCCTCTAAGTCATACTTGACACTTACAGACTGCATCGGGGGCCTCTTGCTAATCGTCCCAGTGTTCCTGTTGCTGTGATGTGCAGCGCAGCCAGAGCAGCCCGGGGAGGAAAGGGGTGTTTTCCTCTGCAGCTCCGTGTTACAGTTCGTCATCAGAGGAAGTCAGAATAGGAGCTGAAGCAGACCGTGGGGGCACTGCTTACTACAGTGGGCTGGGACTTCACCATTAGTCCAGAAACTGCCCCACAGACTTACCTGCAGGCCAGTCTGGAGGGGATATTTTCTCAGTTGGATTCTTGCTACTGACTCTAGCTTGTATCACGCTACCATGTTGGTAGCAAGCGCACTGATTCGGGACGCTATCTGAGCACCTTCTCTTGCTCCAGGGCAGCACTCAGGGCTCGGTTTCTGAAGAAAAGCCCTGCTGAGGATGTGGGGACAGTTCATGACTCTGGAGAGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGGTGTGTGTGTCTCTGTGTATGTGGTGTGTGTGTGTGTGTGGTGTNNNNNNNNNNNNNNNNNNNNNNNNNTGTCTGTGTGTGTGTGGTGTGTGTGTCTGTGTGTGTGTGGTGTGTGTGTGTGTGTGTGTGGTGTGTGTGTGGTGTGTATCTGTGTGTGTGTGTGTGTGTGTGTCTGTGTGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTAGCCAGAGGCTGGCTTTGTGTTTATCCTGACTTGATGCTGACTTGATAACTTTTCACCCCTTAAACACTGCAGGTTTTGGTGATTTGCCTTTTAAAGGTTTCCCCCACAGAATCTAAGCAGTATGATATAGAATCGCTCCCGGATTGTATGGTTCTTTTCAGCACTCTACAGTTTAAGCCTTCTAGAGCTACAAACCAATACATCCTAGCCAATTTTGACTAGTTTAGTAATACAAAATATCAGCACACAGAAGAAAACAAAACCTGTCTTTTGTTATGCATATAATTCAAATAGCAAACTAAAAGAAAAACAGTTTTGCTGCTTTCTGTGTGTACATGTTGATATTAATGAAATATTCCTATATCATGTTTAGTTTTAGCATTTCAATTTGATTTAAACCTTTGTTTTGAAGGGGTTGTTTGTTTGTGTATGTGTTTTTTGGTTGTGAGCCTAGCCTTTAACGGCTGAGCCATCTCTCCAGCCCTGTGTATGTGTTTTTTGAGACAGTGTCTGTCAGCATAGCCCTAGCTATTCTGGAACTTACTCTGTAGACCAGGCTGTCCTCAAACTCAGAAATCCTACGCCCCGAGTGCCAGAAACGAAAGGTTTGAGCCACAGTGCGCTGCTCGGCGAGAGTCTATACAAGTCCTTGTAGAAATCACAAATGGAATAATGCGCTTTCTTCTGATACTGTCAGACTTCTACAAGCGTACTGGCAGCTCCACCATGTGGAGAGACTTGGGCATTGTTTGCTAAGTAATGTCAGAGTGAAAGTTAGTGAAAATCCAGTGGTGTTTCACTGACCTCTTACACAAGTGATTGTGCAGCCCGTGAACTGATGTGTAATGTGGGTCTGGAGGGTCAGGATGGCACCAAAGCACTCCAAAGGAGGTGGGTCTCATTCGTCATCATCATGCGGCATTTGGCATCATGTTTTATAATGTGACTTAAAAGTCAGAATTAAAAGTTAATAGGCTCAAAGAAGTAGAAAATAGTTCTTCTAATGTTTTGGGTTAAGATTTGACATTGGGCCGACTGTGGTAGAGACAGAAACAGGCAGATTGCTGTGAGGATGAGACCAACCTGGTCTACACAGCAAGTTCTGGGACAGCCAGGATTAAATATTGAGACCGTGTCTCAAAAGGAAAAAGACTGGATTAGCAAACTGCATGAAAACAATCACCATTGTAGTCTCTACCTGCTCGGCAGTGGGACTTCTGTGAGCCATCGTTGACTTGGTACATGGCTTACTCTGCTTTGTTCGCTAGGTTCTTCCACCCTGTCTCAGTGGAGTAATAATCCTCTTTATACACAGAGTGCATGGTCCAGAGTGCAGCTATGGCGAGAACAGCTTGTACAGCAATGTACAACAGGCTCAGATTTGGAAAGACTCAGCAACATTTTGCCAGCTTAGTTATTGCTTTTCGAATATTCCATGAAACTCAGCCACAATGGTGCTCCTAGGAGCTGCCTTAAAATGTTTAAAGATCAACGGGCTCTGCAAACCTTCCTGGCACAGTAGAGATGACTGATGGCTAAGCATACGTGCTGCTATTCCAGAGGACACCTCAGTACCACATAGAGAGGCTGATAAGCAGTTGTCTTGGTGACTTTTCTTGGTTGTGTCTCCTACAAGGACCAGCAGTGGGCTCCCTCTTCCTTCTCATCCTCTCCTACTGTTCTCGTTGGCATTGGGCCATTGTGAATAACACTGCGCTGGACATAGGAACTCTTAGGTCCTAGGGTTTCATTCTCAGTGAACACAGTCCTCGTAAAGGGATGGCAGGTGAAAAGGACTGTATAAAGTGGAAGCTTCCGAATAGCTGTTTGGGAGATAAATGAACGAGTGCTGTATGTGTAGAGAGGACTGCTGCTCCATTTAAAAGAGAAGGTTTTATCGTGGAGCATGGCTTGTTGGTATTTGTATTAGTCACAAAGCACAAGTATTCTTTTTGTTTTGAGACTAGTCTTACTTTGTAGCCCAAAATAGATTCTGCCTCCCAAGTAAACACTGGGATTAAATGAGAGGCAGCCCTACAGCAGGTAGTTCTATGAATAACACAAGAAATTTGATGTTAAGTGTACTGAAACCAGGCTGGGTGGCACACAGTTGTAGAATTCAGCTACCTGAAAGATTTGAGGCTGAAGGATCACTTGAGCCTATGAGTTCAACACCAGCCTGAGCAGGACTGTGAGATCTTGTCTACCAGCTACCTAACTAAGACCGTTTAGTGTGTGTGCTTATACTGGATTATGTTTATGGAGGTTACAGGACAACTTTTTGGAATTGGTTCTCTCCTTCCATCATGCGAGGTCCCAGGTGTCTGAGTTGGGTCATTATGCTTGGCAGCAAGTGTCTTTATCTGGTGGCCCTGATTTTTTGTTTGTTTTGTTTTGTTTTTAATTTGGGGCAAGTCAGGTGTGGTGGTACACACCTTCCTTCAACCCCAGTACTTGAGAGGCAGAGGCAGGCAAGTCTTTGTGAGTTAGAGGCCAGCCTGGTCTACACAGTGACACCCTCTCTAGAGAAAAAGAAAAAACAAAAGAGAAAATTTTGGGGTCAAGATCTCAATTCCCAGGGTGGGTTTAAACTCCTTGTGTTCCTCCGCTTCAGCCTCGGAAGTTTGAGGTTTCTGGTGTGCGTATGCTAGCGCAATTAGCATTTTTAACATAGAAGTCTCGGCGAGATGTCTGCTGAGCAGTCCTGTCTGTGTATTGGGTAGTGCTGTCTGCCAGACCCTCCTCCCGGATGTGTACTAGGGTTACAGGCATTTCTCTTCCCTAG
Seq C2 exon
GGGGTCAGACCAACCTTCGAATTCCTCAGGGCACTGTGGGCCAAGTCATGCTGGATGATAGGGCTTACCTTGTACGCTGGGAATACTCCTACAGTAGCTGGACCCTCTTCACCTGCGAGATTGAAATGCTACTCCACGTTGTCTCCACAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025185:ENSRNOT00000030996:7
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(5.7=100)
A:
NA
C2:
PF104874=Nup188=FE(7.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
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]