MmuINT0124052 @ mm10
Intron Retention
Gene
ENSMUSG00000053293 | Pom121
Description
nuclear pore membrane protein 121 [Source:MGI Symbol;Acc:MGI:2137624]
Coordinates
chr5:135384853-135386995:-
Coord C1 exon
chr5:135386824-135386995
Coord A exon
chr5:135384945-135386823
Coord C2 exon
chr5:135384853-135384944
Length
1879 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
TCTCTCTGCTTGACTTGCAGCTG
3' ss Score
10.19
Exon sequences
Seq C1 exon
GCCTGGCTCCCTGAAGAGAAGTCTGGCTTCCCAGAGCTCAGATGACCACTTGAACAAACGGTCTCGCACCTCCTCTGTGAGCTCCCTGGCTAGTGCGTGCACAGGAGGCATCCCCAGTTCTAGCCGCAATGCCATCACCAGCTCCTACAGCTCCACCCGTGGCATCTCACAG
Seq A exon
GTATGTCTCAGGGCCGGGAGCAGAGGATGCAGCTCACCCTCTGTTGCTTTGCACTGAACCTGTCTCTAGGCTAACTGGAATACAAAGCAAATTAACGAGATCAGTGGGACTGAACAGAAAGCAAACCTGGTCCAGATGGAGCAACCTGCAGATGGACCAGTGCAGTAAATGGTACTGATTTAGAAAGGTTTTGTTCCCTTTGGAATGTAAAGGAGATTTATTTCTTTATTTTAAACTTTCTTTTTTTTTTTTTATTACGTATTTTCCTCAATTACATTTCCAATGCTAGCCCAAAAGTCCCCCATTCCCCCCCCCCTCCCCTACCCACCCAATCCCACTTTTTGGCCCTGGCGTTCCTCTGTACTGGGGCATATAAAGTTTGCGTGTCCAATGGGCCTCTCTTTCCAGTAATGACCAACTAGGCCATCTTTTGATATATATGTAGCTAGAGACAAGAGCTCCGGGGTACTGGTTAGTTCATAATGTTGTTGCACCTGCAGGGTTGCAGATCTCTTTAGCTCCTTGGGTACTTTCTCTAGCTCCTCCATTGGGGGCCCTGTGATCCATCCAATAGCTGACTGTGAGCATCCACTTATGTGTTTGCTAGGCCCCGGCCTAGACTCACAAGAGACAGCTATATCAGGGTCCTTTCAGCAAACGCTTGCTAGTGTATGCAATGGTGTATAAAGGAGATTTATAGGCAAGTAGGATTTAGTGTAAGCTTTGATTCATGAAGTAGATGTCATTCTTGTTTAGAGTTCGTTAGAGCCCATAGGTGGGGAAGCCAGGCAGCTCCACTGTCAGGCACACTTGGGCTCCAGTATTGGTATTGACACTAGGAGGTGCACAGGCTCCTGCAGGTAGATCAGTCGCCCTTGGTGTTTGCTTTTGCCTTTTGAGACAAGGTCTCATGTATCCCTGGCTATTGTGCATGCAGCTCAGGCTGGGTTTTAACTAGTAGTGATCCTCCTGCCTCAGCCTCCAAGCACTAGGTGTTCAGCTTGCACCACCATGCCCAGTTTGTATCTAATACTCATATTCATGGAATATCAGAATCTGTAAAAATAGAGGCTGTACTTTTTACTATAGATGATTTTTGTTAGAATATGTAATGAATACAAGAATTACCTCTTTATTTCTTTTTTAAGATATTTATTATTTTTATGTATATGAGTACACTGCAGCTGTCAGACACCCCAGAAAAGGGCATCTGATCCCATTATAGATGGTTGTGAGCCACCATGTGGTTGCTGGGAATTGAACTCAGGACCTCTGGAAGAGCAGCCAGTGCTCTTAACTGCTGAGCCATCTCTCCAGTCCTTTTATTTCTTTTTTTAAGATTTATTATTTTGCAGTATGTGGTGGAATACTCTAACAAGACCAGCCTGGCCTACATAGTAAATTGCAGCCAGGGCTATGCAGTAAGATATGGTCTTAAAAAAAGAAAAGAAAGATATTTTTATTTATTTGAGCCTGTGTGAGGCCAGAAAGCATCCATCATCCTAGGAACAGGGTTACAGTATTTGTGAGCAGTCTGGTGTGGATGCTGGGAACCAAACATGGGTCTTCTTCAAGAGCAGCAAGTGTTTCTTAACCACTGAGCCATCTCTCCAGTCTCTCAGAAAGGTTTAGTTTTGCTGTGTTTCTTGATTTTTTTTTTTCTTTTAGTTTTTTGAGACAGTCTCTCAGTAACCCTGGCTGTTCTGGAGCTCACTATGTAGAGCAGGCTGGCCTTGAACTCACAGAAATCTATCCACCTCTGCCTCCTTAGTGCTGGGATTAAAGGTGTGTGCCTTCCTGCCTGGCCAGGTCAGAATATCTGCCTACATAGCCATATTGTCAGTAGTAGTTTCAGATTGTCTCTCTGCTTGACTTGCAG
Seq C2 exon
CTGTGGAAGAGGAGTGGTCCCACATCTTCTCCCTTCTCCAGTCCAGCTTCCTCCCGCTCCCAGACACCAGAGAGGCCAGCCAAGAAGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000053293:ENSMUST00000111171:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF152291=POM121=FE(23.9=100)
A:
NA
C2:
PF152291=POM121=FE(12.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGGCTCCCTGAAGAGAAGT
R:
CTTGTCTTCTTGGCTGGCCTC
Band lengths:
263-2142
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types