MmuINT0111927 @ mm10
Intron Retention
Gene
ENSMUSG00000001855 | Nup214
Description
nucleoporin 214 [Source:MGI Symbol;Acc:MGI:1095411]
Coordinates
chr2:31994523-31996551:+
Coord C1 exon
chr2:31994523-31994976
Coord A exon
chr2:31994977-31996375
Coord C2 exon
chr2:31996376-31996551
Length
1399 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGT
5' ss Score
9.82
3' ss Seq
AACTGCATTTCCGTTTTTAGGTT
3' ss Score
11.17
Exon sequences
Seq C1 exon
GAAGTTTTCCTGGTACTCCATCTTCCCCTCAAGCTCCACAAAACCTGGACGCTCCAGCAACAGCCTCTTCGCCTCTTCCACCTGTGTCCGCTGCTCCCACCTCCACCTTCCCTATGCCCTCTGCTGCAGGAAGCCCTTCTGTGTTCTCCTTTGGCCCTTCATCCTTCAAGTCTTCTGCTTCTGTCACCGGGGAGCCCCCACTGTACCCCACTGGCTCCGACAGCTCCAGAGCAGCACCAGGCTCTGGCACCTCCACTTTCTCTTTTGCTCCTCCTTCCAAAGGCTCCCTGGCGTCGACCCCTGCAGTGGCTCCTGTGGCCACATCTGCTGCTCCCTTCACTTTTGGTTTTAAGCCCACCTTGGAAAGCACACCTATGTCCAGTACCCCAAACACAGGGATGAAGCCTTCGTTCCCTCCCTCGGCCTCTTCGGTGAAAGTCAACCTGAATGAGAA
Seq A exon
GTAAGTCACCTTGAAAGGCCGACTTTTCGGAAGACTGGGTCCAATAGTGCATGGTGGTCAGTGAGCTAGTCACTCGAGGGCAGTACTGAACAGTCCTTCTGAAGTAGCACTTAACAGTGGGAAACGAGCCAATGGGAAGGCTGTGTCTGCTCTGCAGCGGAGTCCAGAGTGACTCTTAAAGGGCTTCAGCTCTCTGACTGTTAGAAGTTCACACTAAGTAGTTGTCTCACTTTCTCAGCCTATAAAGATAGCAGGTGTTGCTTATTTTAAGAAGGAAGCTGCCCAGAGCATGCAGCCTGGGAAGGAAATCGGACTTTTGTAGTTTTTTCCTCTCATAGCTACTCTTGACTATCAACTGTTTTCTGTGCGGCCAACAAGGTGACTTGAGCAGTTAGAGACACATGAGGTCACTCTCCTGCTTGCCGGTCGGTCCCCTAAGGTTTCTTGTTGCGCGTTTCTTTACAATTCAAACCTTTTAGTGTGGGATCTAGTTTCCTCCAGATCTAGTTCCAGTCATCCCGCTCATCCTTTATTTATTTACCTCTTGGTCTTTTTCTGTTCTCCCAATAAACTGAGCGTGGAGAGGGAGTGTTCCCCTGTATTGTACAGCCTTTTCCAGTTGCAGTGGGTGTCAGAACCTTCAGTTTGGGGGTCTGCTTGCCTCATTGCCAGGATGTCCTCCTGCAGCCAAACTGTCATTGCTCAGATGAGATCCACATGTGGCTACTTCATTTTATTTATTTTTTAAGATTTACTTATTTATTATATGTAAGTACACTGTAGCTGTCTTCAGACTTCCCAGAAGAGGGCATCAGATCTCAATACTGAGGATGGCTGTGAGCCACCATGTGCTTGCTGGGATTTGAACTCAGGACCGTCAGAGGAGCAGTCAGTACTCTTAACTGCTGAGCCATCTCTCCAGCCCCGAGCCACTTCTTGGTATTTCATTTTGTTGGGCTGCTTGTTCTTTAACTGAGCTTGTCTACATTGGTGGAGCTGACTTGACATTCTTACTAGGTCATGGTGTCCCAGAGACAGTGACTTGCTTGCTTCCCTGGTGTTCTCACAGCCCAGAAACAATCATCCTCAAAACTCATTCTCTTGCTTTGTTGCACCACCCCCTTAAAACACACATACACACATACAAACGCACACGCACCCACGTACACACGCACCCCCATGTGACAGGGTAGAAAATAGATGCCTCCTGCACTGAGTGCTTCGGCTGTGCTGCAGTTGATGAGTAGGTGGTAACTGTGCCCTCACAAGAGTAAGCAGCACGTGTGCTGGTCTGAAAGCAGAGATGGCTTGTCAGTTTTTCTTGGCTATCACTGCTCACGCCTGGTGGGAAAGAAGCCTCTAACAGACTGTTGTGACAGAACTGCATTTCCGTTTTTAG
Seq C2 exon
GTTCACCGCTGTGGCCTCCTCTGCACCTGTTCATAGCTCCACGAGCACACCCTCCGTGTTGCCGTTCTCCTCCTCCCCGAAGCCAACGGCTTCTGGACCACTCAGCCATCCTACGCCTCTCCCAGCATCATCCAGCTCCATGCCTTTGAAGTCTTCGGTCTCTCCCTCGCCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001855:ENSMUST00000065398:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.770 A=NA C2=1.000
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:
TCTGGCACCTCCACTTTCTCT
R:
CATGGAGCTGGATGATGCTGG
Band lengths:
354-1753
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