HsaINT0101546 @ hg19
Intron Retention
Gene
ENSG00000175221 | MED16
Description
mediator complex subunit 16 [Source:HGNC Symbol;Acc:17556]
Coordinates
chr19:889638-890244:-
Coord C1 exon
chr19:890137-890244
Coord A exon
chr19:889808-890136
Coord C2 exon
chr19:889638-889807
Length
329 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TGATGGCTTCTTGCCCTCAGGCT
3' ss Score
8.16
Exon sequences
Seq C1 exon
ACCTGACCCGCATGATCCACATCCTGGACACGGAGCACCCCTGGGACCTGCACTCGATCCCCTCAGAGCACCACGAGGCCATCACCTGCCTGGAGTGGGACCAGTCAG
Seq A exon
GTGAGGCGCTGGTCCCACGTGGCCAGGGGTGGCGACCCGGATCCCGGAGCAGGGGGGCCCTGTGTTTCTCCGGTCAGTCTGGAGTCCGGCGCTGGGTCTAGAGCCCCTGGTCTGCAGCTTTGCACCTGCTGCTCTTTCCATAGTGGCCCGAATCATTCTTGTTCAGGGTGTCTCAGGGCATCTCTGGAGTGCGCCTTGTGCCACCTGCTGTGCCCTACCTGGGCCGAGACCTCTCCACTGGGCTGGCTTCCCCCAGGCGCTGTGCCGTCCTGCAACGCAGTGCTCTGCCCATCCCTGGAAGGTTCGCAATGATGGCTTCTTGCCCTCAG
Seq C2 exon
GCTCCCGGCTCCTGTCAGCAGATGCCGACGGGCAGATCAAGTGCTGGAGCATGGCGGACCACCTGGCTAATAGCTGGGAGAGCTCAGTGGGCAGCCTAGTGGAGGGGGACCCCATTGTGGCCCTGTCCTGGCTGCACAATGGTGTGAAACTGGCCCTGCACGTGGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000175221-MED16:NM_005481:3
Average complexity
IR-S
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:
PF0040027=WD40=PU(56.4=59.5)
A:
NA
C2:
PF0040027=WD40=PD(41.0=28.1),PF116353=Med16=PU(90.9=52.6),PF116353=Med16=PU(0.6=3.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTGACCCGCATGATCCA
R:
CTTCTCCACGTGCAGGGC
Band lengths:
278-607
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)