HsaINT0101543 @ hg38
Intron Retention
Gene
ENSG00000175221 | MED16
Description
mediator complex subunit 16 [Source:HGNC Symbol;Acc:HGNC:17556]
Coordinates
chr19:867630-868946:-
Coord C1 exon
chr19:868863-868946
Coord A exon
chr19:868500-868862
Coord C2 exon
chr19:867630-868499
Length
363 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CAGTGCCTGCCTCCCCGCAGGTG
3' ss Score
11.16
Exon sequences
Seq C1 exon
GGCCCCAGGCCAGCCCAAGATCGACCACCTGCGGAGGCTGCACCTTGGCGCTTGCCCCACGGAGGAATGCAAGGCCTGCACCAG
Seq A exon
GTGAGGGGCCCCCGGAACCGCTGACTCCCAGAGATGTGCCGCTGGGGATGGCTCAGCTGATTCTAGCCCCCACCCAGCGCTCCAGACGGTCAAGGGTGGTGGAGGGAGCACGTCCCAGAGGGAGTGTTGGAGCCAGGATCCCAGGATGTGGAGCAGTTAACTTGGTGTGGCGGGGCTAGTTCAGGGAGCAGCATTGCTGGGGGGAGGAGAAGCATGGGCAGAGGCCCTGTGGCAGGTGGGGACGTGGGGAGCAGGCGTGAGGGACGGCGAGCAGAGGGAGACCTGCCTGGAAGCAAAAGTGGGGCAGGCGTAAGGGAGGCCCGCCTGGAAGTGGGAACCCGCTCAGTGCCTGCCTCCCCGCAG
Seq C2 exon
GTGCGGCTGTGTCACCATGCTCAAGTCGCCCAACAGAACCACGGCGGTGAAGCAGTGGGAGCAGCGCTGGATCAAGAACTGCCTGTGCGGTGGGCTCTGGTGGCGGGTGCCCCTCAGCTACCCCTGAGCCCAGCTGCCCCTCAGCTACTCCTCAGCTACCCCTCAGCTGCCCCTGAGCCCGGCTGCTGCAAGAGCCACCGCTCGCCCTGGACTCTCCTCGGCGCGGTTAACCTCAGCCCGCCCTGCAGGGCTGTTGAAGGCCGTGGGCCGGACGCCTGCGTGACCAGCAGAGCTTCTGAGGAAGCCCCTGCCTTTGTCCAGCTGGGCCCGCAGTCCACACACCACTCTCCCAGGACCCCCAGATCCCTGGACCATCTGCATCCAGAGGACCGTCCGTGACGGCCGGGGGTCCAGGCGGACCTTGTGGTGACCCGGCTCGGGCGTCTCCTCGGTTTCCTTGCCTCACCCGCGGAGAGCGCTGAACCTGGACAAGCAGCGGCTGGGAAGGACAGGTCCAATAAACGCCCTCTGCGCCCAGGCCCGCGTCCCTGCCGTCGGTGCCCCCGACCCCACCCACGACCTCGATTTGGTGCCGGGAGCCTGTGTCCTCTTGGCCTGTCTTTAAATCCTTCAGCATTTATGGGGCACCTAGTGGATGCCGAGTCTGGGGGTATCCAAAGTGAGCAGTGGGGACAGGACACAGCAGGCCGGTGGATGGGATGGGGCGGCCATCGTCAGGGTGGCTTCTGTCCAGGCATCTGCCTTTCAGTGTGTTGTCTGCCTGTCTCTATACTGTCTCTGCGTGCTCTCCTTGTTTCTGCGTGTCTCTGGTATCTCTGCACTTCTCTGTGTATGGTCTCTGTGTCTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000175221:ENST00000395808:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.045
Domain overlap (PFAM):
C1:
PF116353=Med16=PD(3.8=20.0),PF116353=Med16=FE(19.1=100)
A:
NA
C2:
PF116353=Med16=PD(4.9=81.4)
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:
CGGAGGAATGCAAGGCCTG
R:
CAGCTGGACAAAGGCAGGG
Band lengths:
349-712
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