MmuINT1022941 @ mm10
Intron Retention
Gene
ENSMUSG00000013833 | Med16
Description
mediator complex subunit 16 [Source:MGI Symbol;Acc:MGI:2158394]
Coordinates
chr10:79907491-79908921:-
Coord C1 exon
chr10:79908818-79908921
Coord A exon
chr10:79907654-79908817
Coord C2 exon
chr10:79907491-79907653
Length
1164 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAGT
5' ss Score
8.02
3' ss Seq
GCCTCCCTTTTCCCCAGGAGCCA
3' ss Score
-10.45
Exon sequences
Seq C1 exon
GCGAGGGGGCCGGCGCGGGCCTAGAGATGGCGGCGTCGGATCCCGGGCGTTGGGGCGAGTGTGGACCGCGGCCGCCGGGCCGACTGGGCGCCCGGGGCGGACAG
Seq A exon
GTTAGTACGGCGTGCGGGGTACGGGACTCGTGGCTGGTGCGTTTCAGGCTAAAACCGCGAGCGGAAGGCCGAGGGGCGGGGCTTGCGGGGTCAGAGGGCGGGCCTGGGAACAAAGCTTGCTGGGTAGAGGCCGTTGTGGGAGGGATGTGAATAGGGGGAGCCTAAGGCGACGGGGTTGAGGAGGGGGCGTGGTCCGAGGGGCTGAGCCTCCCTGGGAGGGGCGTGGCCTGAGTTCAGAAGTTGGATGGAGGGGCAGAGTCTGAAGAAATAAGACTGATAGAGAGGGATGTGGCCTAGGGAGCGGAGTCTAAGGTGGGCCGGGGTTGGGGGTGCTAAAGATCTGAGATCGATGCAGAGAGGTGACCTAGTAGTCACAAGCTGAGCAGAAACTGAGGCTGAATTTACCAGTTTGGTTTGGAGGCGGAGCCTAGGGTGATTAGACAATGTGGGTGGAGCTTAACGAGCTTGGGCGGGAGGTGGTGGAGGTGTGTGTGTTAAGACTCAGGATTTAGCCGGGTGTGGTGGTTCACGCCTTTAATCCCAGCATTTGGGAGGCAGAGGCTGCGGATTTCTGAGTTCGAGGCCAGCCTGGTCTACAACGTGAGTTCCAGGACAGCCAGAGCTATACAGAGAAACCCTGTCTCGAAAAACCAAAAAGAAAAAAAAAAAGACTCAGGCTTTTTGCCAGGCGCACGCCTTTAATCCCAGCACTTGGGAGGCAGAGGCAGGCGGATTTCAGAGTTCGAGGCCAGCCTGGTCTACAGAGTGAGTTCCAGGAGAGCCAGGGCTACACAGAGAAACCCTGTCTCAAAAAAAAAAAAACAAAAAAAGGCTCAGAATTTGAGCCTTGGATGTTAACTTGTTGAGAGTATTGTGTGGCATGGGCTGCTGCGGGGTCTAAGCTACTAGGTCCCAGGCAAGGCTTGGAGACTGAACTAGAGTGTAGACTGAGGCCCAGACTGAAGTGGTAGGGGTGGGCCCGGTTGTGTGTGTGGAGGGTGCTTAGCGTTTGTAGGCTGAGCTCAGGCTGATCTGGGTTGCCTAGGGAGGAGTGACCCCAGGCGGGGCATCATGGATTTTATAGCAGGGCTCTCGCTGGAGAACATTCTAGACACCCTTTAGCTGGGAGCTGCTATAGAGCACTGCCTCCCTTTTCCCCAGGAG
Seq C2 exon
CCAGGGACCGTGCTGGGTGCGGTGGGTATGATGGACCTGGCCTATGTGTGCGAATGGGAGAAGTGGGCCAAGAGCACGTACTGCCCGTCGCTGCCCCTGGCTTGTGCCTGGTCCTGCAGGAACCTCATTGCCTTCACCACAGACCTACGCAATGATGACCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000013833:ENSMUST00000105378:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.846 A=NA C2=0.002
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGCGGGCCTAGAGATGG
R:
CCTGGTCATCATTGCGTAGGT
Band lengths:
255-1419
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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