MmuINT0097401 @ mm10
Intron Retention
Gene
ENSMUSG00000013833 | Med16
Description
mediator complex subunit 16 [Source:MGI Symbol;Acc:MGI:2158394]
Coordinates
chr10:79898236-79899103:-
Coord C1 exon
chr10:79898897-79899103
Coord A exon
chr10:79898447-79898896
Coord C2 exon
chr10:79898236-79898446
Length
450 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
CTGTGCCACCCCCTCCCCAGGTC
3' ss Score
10.46
Exon sequences
Seq C1 exon
CTCAGCATGCTGCGAATCTCTCCATCCCTGGGCCACCCACTGGAGCCCAAGCTGGCCCTGCAGCACCTGCTTTTCCTGCTGGAATACTGCATGGTGACCGGCTATGACTGGTGGGACATCCTGCTACACGTGCAGCCCGGCATGGTGCAGAGCCTGGTGGAGCGGCTGCATGAGGAGTACACTCGCCAGAAGCCCGCCCTGCAACAG
Seq A exon
GTAGGGCTGACAGGTGGGCGGGTCGTGTCCCCAGAGTGACTGCCCCTTCTCTATGTGGGGTTGTGGGTGACGCCCTATTGCTGACCTCAGAGTGAGTGGGGAGATGGAGCCTGCAGGCCAGAGGCTGGGGCAGGAGGATCATGATTTGGCGGTCAGTCTGGACTGCAGAGCAAGCGAGACCTTGTCTCAGAGCTAAGCATTCAGGACTGCTGCTCAGTGGATAGCACATCAAAGCATGTGGGGACTCATAACTGGCCCCTGTCACCCTTGCTAATGAGTGTCCTGGGGATGTTGGATTTGTATGCATTGAGGGGAGCCCAGAGAGGTGACCCACCTGGGGAGGGTCCCAGCCAAGTGGCCCTTTCCCATAACCCCTTGTTCCCTAGGCTCTGGGTGCAAGCCCCTAGCTGGCCAGGCCTTCCACTCAACTCTGTGCCACCCCCTCCCCAG
Seq C2 exon
GTCCTCTCCACTCGGATCCTGGCCATGAAGGCTTCACTGTGCAAGCTGTCACCCTGCACAGTGGCTCGTGTGTGTGACTACCACACCAAGCTGTTCCTCATGGCCATCACGTCCACCCTAAAGTCGCTGCTGCGCCCACACTTCCTCAACACCCCTGACAAGAGCCCTGGGGACCGCCTGGCCGAGATCTGCGCCAAGATCACCGATGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000013833:ENSMUST00000105378:9
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:
PF116353=Med16=FE(9.5=100)
A:
NA
C2:
PF116353=Med16=FE(9.8=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:
TGCGAATCTCTCCATCCCTGG
R:
TCAGGGGTGTTGAGGAAGTGT
Band lengths:
355-805
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