MmuINT0111767 @ mm9
Intron Retention
Gene
ENSMUSG00000052533 | Nup188
Description
nucleoporin 188 [Source:MGI Symbol;Acc:MGI:2446190]
Coordinates
chr2:30172701-30177554:+
Coord C1 exon
chr2:30172701-30172827
Coord A exon
chr2:30172828-30177401
Coord C2 exon
chr2:30177402-30177554
Length
4574 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGA
5' ss Score
9.14
3' ss Seq
CAGGCATTTCTCTTCCATAGGGG
3' ss Score
8.3
Exon sequences
Seq C1 exon
GTGTACAGCTTCCTGGATAAAATGTCTTTCTACAACGAACTCCATAAGCACAAGCCCCATGATGTGCTCTCTCATGAAGATGGAACTCTGTGGCGGAGGCAAACACCCAAACTCCTGTACCCTCTAG
Seq A exon
GTAAGAAGGGCTGTTTCAAGGGGTCTTTTCATAGGAAGTGCCTGTGAGGCCCTTCCCCCTCTTCTCAGGACTTGTTGACCACTGACTGCTGAGCAGCAGGCTCAGAGCAGTGTGACGAGCAGTGAGTGCTCCCCAGCTGAGTAGCACTCGCTCTTCTCCTTCTCCTCCTCTCCTTTTTTCTTTCTTCTTTTTTTTCTTTTTGTTGTTTGTTTGTTTGCTTGTTTGTTTTTGGTTTTTCGAGACAGGGTTTCTCTGTAGCCCTGTCTGTCCTGGAACTCACTTTGTAGACCAGGCTGGCCTTGAACTCAGAAATCCACCTACCTCTGCCTCCTGAGTACTGGGATTAAAGGTGTACACCACCACTCCCGACTGCTTGATTGTTTTGAGAGCATCTTGTTTTGCTGTTAGCCCACGCTGGCTCAGAATACATGATTTTCCTACTTCATACTGAGCTTCTGCCTTTTTTTTCTTTTTTTTTAAATGAATGTTTTTGCATCACTAGTTTCCCTTACTGTGTTACTGTTGTGCTGTAACAAGGTAAACAGGGCAGAGGTCTGCGTCACTGATGAGTGAAGTGTGTGATGTGCATCCTTCCACATAGCTATGTTTAGAGTGCATGGGCCTTTTCTCTTGCTAACTGTCTAGTGTTTCTGTTGCTGTGATGAGCATACAACCAGAGCAACTTGGGGAGGCAAGGGCTGGTTTTCTCTTCCAGTTCATTATCAAAGGAAGTGACACGGAGACCATGGAGAAACTCTGCTTACTGGTTGGCTCCTCTTGGCTTGCTCAGCCTGCATTCTCATACCTGCCCAGGGCTGAGACCACTCACAGTGGGCTGGGCCTTCCAGATCAATTGTTAGTCCAAAAAATGCCTCACAGACTTACCTACGGGCCAGGCTAGAGGGGTATTGTCTCAGTTGAGATGCTTGCTGTATGACTCCAGCTTGTGTCAAGTTGACAGTGTTAGTAGCAGGCACACTAACCCCAAAGGTTTTGTGAGCATGTTCTCTTATGCTAGGACACTCACTGCTTGGTTTCTGAAGGAAAGCCCTGCTGAGGACATGGGAGCATGTGCGCGCAAGTGTGTGCGCGCGCGTGTGTGTGTGTGCGTGTGTGTGTTTATTCTGACTTAATGACTTTTCACCCCTTAAACACTGGAGGTTTCAGGTTTCCTATTTAAACATTTTTCCCACAGAGTCTATGCAGTATGAGATAGGATCCAGCCCTAAAGTGTTCTTCAGAGCACCCATCTTTTTATATACATATAATTCAAATATCAAACTAGAAGAAAAACAGTTTTGCTGTTTTCTGTATGTACATGTTGATACTAGTGAAATATTCCTATATTGTGTTTAGTTTTAGTATTTTTTTTAAGATATATTTATTTCATGTATGTGAATACATGAGTAGCTGTCTTCAGACACACCAGAAGAGGGCATTGGATACCATTACAGATGGTTGTGAGCCTCCATGTTGTTGCTGGGATTTGAACTTAGGACTTCTGGAAGAGTGGTCAGTGCTTTTAACCACTGAGCCATCTCTCAAGCCCAAGTTTTTTTGTTTTGTTTTGTTTTTTTGTTTGTTTGTTTTTTTTTTTTTTTTTTGAGACAGGGTTTCTCTGTATAGCCCTGGCTGTCCTGGAACTCAGTTTGTAGACCAGGCTGGCCTCAAACTCTGAAATCCACCTGCCTCTGCCTCCCGAGTTCTGGGATTAAAGGCGTGCGCCACCATGCCCAGCTCAAGCCCAAGTTTTAGCACTTCAAATTTGATTTAAAATCTTTTTTGGATGGGTTGTTTTATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTGAGACAGTGTCTGTTTGTTTACATAGCCCTAGCTATCATAGAACTTACACTATAGACCAGGCTGGCCTCAAACTCAGAGATCCTATAGACCCTCCCTCCTGAGTGCTAGAAGTTAAAGGTGTGCACCAAAGTGCCCTCCTCAGTTTTAGTGTTCACACAAGTCCTTGTAGAAATCACGGACGGAATAATGCACATTTTCTTCTGATACTGTCAGATGTGCTTTCTATACGCTCCCTGGAAGCTCCACCTTGTGGAGAGACTTTGGGGATTGTTTGCTTAGTGATGTCAGAGTTAAAGTAAGTGAAAGTCCATTGCTGATTACACTGACTTCCTGCCCAAGTCATGTGTGGCCCATGAACTGATGTGCAGTGTGGGTTTGGAGGGTCACCTCTGCTCCAGTGCTGTAGTTTATCTCGGGTGACACACCAAAAAGGAGATGGGTCTCACTTGTCACCATTACACATTATTTGGTGTCATATTATAAATCAGACTTAAAAGTTAATAGGTTTGCCGGGCATGGTGGCACATGCCTTTAATCCCAGCACTTGGGAGGCAGAGGCAGGCGGATTTCTGAGTTCAAGGCCAGCCTGGTCTACAGAGTGAGTTCCAGGACAGCCAGGGCTACACAGAGAAACCCTGTCTCAAAAACAAACAAACAAACAAACAAAAAAAGTTAGTAGGCTCAAAGATGTAGAAAATAGATAATCCTTCTAATGACCTGTTTTGTGTGAATGGTTGTTAAGATTTAAATTGGGCTGACAGTGGTAGAGACAGAGACAGGCAGAGTACAAGACCAACCTGGTCTACACAGCAAGTTCTAGGATAGCCAGGGTTAAATATTGAGACCCTGTCTCAAAAGGACGAAGACTGGATTAGCAAGCTGCATGAAAAGGACCACCATCATAGGATCACCATCTGCACTACAGTGGGAATTCTGTCAGACACTGTTGACTCTGTACATTGCTTGCTCTACCCAGTAGAGTCTTGTTGCTTCTTCCACTCCGTCTCAGTGGAATAGTATTCTTTATACAGAGAGCAGTGGTCCAGTGTACAGCTGTGGTGAGAACAGCTTGTACAGCAATGTAGACGGCTAAGATTTGGAAAGACTCAAACATTATTTTGCCAGTTTAGTTCTCCTCGCTTTTAGAATATTCCACAAAGCTAAGTCAAAATGGTAGTCTTTATGGTCTGCCTTAAAATATTTAAAGATCGCCGGGCAGTGGTGGTACACGCCTTTAATCCCACCACTCCGGACGCAGAGGCAGGCAGATTTCTGAGTTCAAGGCCAACCTGGTCTACAGAGTGAGTTCCAGGACAGCCAGAGCTACACAGAGAAACCCTGTCTCAAAAAAAAAAAAAAATTGAAAGATGAACGTGCTCTGTAAACCTTCCTGGCACCAGGGTGATGACTGCTTGGCTAACCATACGTGCCACTTTTGCAGAGCATACTTCAGTACTACAGAGAAAGGGGCATAGCCTACTGTCCTGGCTGTGTGCCCTCTGCTGCTGTCTCCTACAAGGACCAGCAACTACCTCGCTCATCCCTTTGGTCCTCTGCAATCATTATGCATCAGCGTCAGGCCTTCATACATAATACTGCATTGAACATGTGAACTCTTAGGAACTAGCGTGTCATTTTCATAACCACAGTCCTCAACAAGAGATGGTTGGGAAAAGGCTGTGTATAAAATAAAAGTTTTCGAGTGGATATTTGAGAGGTAAATGAACATGTGCTATATGTGTAAAGAGGAATGCCACTCCATCTTAAAGAGAAACTGTTATCTTAGAGCATGCTGTGTTGATAGCTTGTAGTCTCATATAGATTATGTCACATATAAACCCTGCAGGTGGCTTGCCAGTCACAAAAACACAAACTGTTTTTTGGTTTTGAGACTAGTCTTAACTTTGTAGCCCACACTAGCTTTCACCTCAGCCTCCCAAGTGAGCACTGGGATTAAATGGGAACCAGCCCTACAGCACACAGTTCTGTTAATAATACGAGAAATTTGATGTTAAGTGTATTTGAAACCAGGCTTGGTAGCACACAGTTCTAGAACCCAGCTACTTGAAAGATTTGAGACTGAAAGATCACTTGAGCCTGTGAGTTCACTACCAACCTGAATAGAACTGTGAGATCTTGTGTACAAAATAAATACATAAATACATAAAATAATAAAAATGACTATCTAGTTTGTGTGCATACACTTAAGTATATTTATGGAGGTTAGAGGACAACTTTTGGGAATTGGTTCTCTCCTTCCACCATGTGAGGTCCCAGGTGTCAGAGTTGGCTCATTATGCTTGGCAGCAAGTGCCTTTATCTGTTGACCCTGTTTGGGTTTTTTTTTTCCTGTTTGTTTGTTTTGTTTTTTTCAACTTGGAAAAGTCAGGTGTGGTGGCACACATCTTCCTTTAATCCTAGTACTAGAGAGGCAGAGGCAGAGGCAGGTGAGTCTTTGTGCGTTAGTTAGAGTCCAGCCCAGTCTACACAGTGACACCCTTTCTAGAAAAAAAGAAGACAAAATTTTGGGGGCAAGATGTCAGTTCTCAGGGTGGGATTAAAGCATTCCTCTGCCTCAGCCTCAAATGTCTGAGGTTGCAGGTGTGTGCCAGCACGTCCAACTTTAGCATTTTTCATGTAAAGGTTGTAGGAGTGGTGTCTGCCAGGAGGTCCTCCTCCCAGATTTGTAGGAGGATCACAGGCATTTCTCTTCCATAG
Seq C2 exon
GGGGTCAGACCAACCTTCGCATTCCTCAGGGCACTGTGGGCCAAGTCATGCTGGATGACAGGGCTTACCTTGTCCGCTGGGAGTACTCTTACAGCAGCTGGACCCTCTTCACCTGCGAGATTGAAATGCTGCTCCACGTTGTCTCCACAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000052533-Nup188:NM_198304:15
Average complexity
IR-S
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(5.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
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]
SPECIAL DATASETS
- Pre-implantation embryo development
Other AS DBs: