MmuINT0111925 @ mm10
Intron Retention
Gene
ENSMUSG00000001855 | Nup214
Description
nucleoporin 214 [Source:MGI Symbol;Acc:MGI:1095411]
Coordinates
chr2:31990235-31991425:+
Coord C1 exon
chr2:31990235-31990361
Coord A exon
chr2:31990362-31991263
Coord C2 exon
chr2:31991264-31991425
Length
902 bp
Sequences
Splice sites
5' ss Seq
TCAGTGAGT
5' ss Score
7.68
3' ss Seq
TCTGTTCTTTTTTTTTACAGATG
3' ss Score
12.26
Exon sequences
Seq C1 exon
ACTAATTGGGAATCTTGGCTGCTGGAGGACTCTAGTCGAGCTGAACTGCCTGTGACAGACAAGAGTGATGACTCCTTGCCCATGGGTGTTGCCATAGATTATACCAATGAAGTGGAAGTCACCATCA
Seq A exon
GTGAGTGTTGCCTAGTGTGTGCTGTAGTAATAGCTGTGCTCTAATGGTTGATACTTAGAAGCTATTAGTACATCTCTATCTACAGAGTAGTGGGAGGTTCGTCATGACAGTGCAAAGCTACCCAAAGATGGGGACTCATTGCCGACACCGCAGCCAGATACACTCATGTGCACTGACTTGAGGATGGAGCAGTTGAATTTCAAGACATAGTTTCTGCCCATTCGGTGCCCTAGTGACCTCACAAGTGTCATTGTCAGCTGGCAGTGCACCCAAACCTAGGTTAAGAGAAGGATGAGGGGGTAGTGCTCTAAGCTTCTGTTTTCCACATGGGACCTGCACATGCTCTCTGAGTACGCCTTCCCCTGTGGAGGTTAGCAGTGTGGCCACAGTGACAGATGTCATGAGGCAGCTGAAGAAGCTCTGCCTGCTGGAGCTTCACTCTGCAGAGCTGTCCTACTCAGACACCATTGACCCTGTCCTTTCCCTGGTTTGGTAGGCACATTTGGTCTGATGAGCTTGTATTCTTTTTCTCTTGTGTACTTATGATTCAACTGGGAATGAGTATAAAGTAGCTTAACTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTAAGAGCCATCTTGTCATTTCTGTACCAAACCCATCATTGCCTAGAGACTCCTAGCTTGTCAGGGTAGTGTTGAACCTGCCTCCGGAACAGAGGAGCTTGGGAGAGTCCAGGGCTTAGAGTGTCCAACAGGGCCCAGCAGGATGTGGTGATCTGATAGTGATAAGAGCTCTTGATGCAGCTGCTGTTGCAAGAATCACTTGAGTACCTCTCATGCAGGGCAGCCTGCCCTTCAGGTTGTGCCCGGAAACTGATGAGGTTCTCTTATCAGCTCTGTTCTTTTTTTTTACAG
Seq C2 exon
ATGAAGAAAAGACTCTTCCGCCTGCTCCGGTTCTCCTGTTACTTTCAACAGATGGTGTGCTTTGTCCATTTTATATGATCAACCAAAATCCTGGGGTTAGGTCCCTAATCAAGACCTTGGAACTGATCTCAACAGAAGGAGAGCGACAGCCTAAGTCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001855:ENSMUST00000065398:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.264 A=NA C2=0.333
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATTGGGAATCTTGGCTGCTGG
R:
CTGAGGACTTAGGCTGTCGCT
Band lengths:
286-1188
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