HsaINT0101552 @ hg19
Intron Retention
Gene
ENSG00000175221 | MED16
Description
mediator complex subunit 16 [Source:HGNC Symbol;Acc:17556]
Coordinates
chr19:875244-877180:-
Coord C1 exon
chr19:876974-877180
Coord A exon
chr19:875455-876973
Coord C2 exon
chr19:875244-875454
Length
1519 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGG
5' ss Score
6.92
3' ss Seq
ACCTGGCTTCCTGCCCTCAGGTC
3' ss Score
11.51
Exon sequences
Seq C1 exon
CTGAGCGTGCTCCGCCTCTCACCTTCCATGGGCCACCCGCTGGAGGTGGGGCTGGCGCTGCGGCACCTGCTCTTCCTGCTGGAGTACTGCATGGTGACCGGCTACGACTGGTGGGACATCCTGCTGCACGTGCAGCCCAGTATGGTACAGAGCCTGGTGGAGAAGCTGCACGAGGAGTACACGCGCCAGACCGCTGCCCTGCAGCAG
Seq A exon
GTGGGGGCCCGTGGCAGGTGGGGCCCCGTGGCAGGTGGGGGCCCTGTGGCAGGTGGGGGCCCCGTGGCAGGTGGGGCCCCGTGGCAGGTGGGGGCCCCGTGGCAGGTGGTCCCGTGCCAGGTGGGGCTGTCCCTGTGGCAGGCAGGGGCCCCGTGGTCAGTAAAGTGCCAGCAGCAGGGAGGGAGTTCCCTTGGAGGGTGGAGGAGGTCTCTGCAGCAGTTGTAGAGGTCCCCACGGCAGATGTGGGGGTTGTGGCAGCTGGAGGGGTTTCCCTGCGGCAGGTTGGGGGCTCTATGGCAGGCGGAGGGCAAGAGGGGCAGGTAGCCTGTGGCAGGTGAGGCTGCGTGTGGGGTGTGCTCCCAGAGGCCCGTCCAGGAAAGCTGCACCTCAGAGAAGCAGTTTCCTTCCTTACCTGGGAAGTTTCTTCTGTAACACGTTAAGCCCCACAGGTAAGGCCTGATCCCCCCTGGACGGCTCCCCTCTCCAGTGTTCCCAGTCTGGAGGTATCTTTCTAAGCCATCCTCTCAGAATGTGATGGGTACCAGGATGCACACCCGGTGGCCCTGTGGTGTGAGGCCTCAGCAAACACGGTCAGAAGATGAACACACAGAGACCCGCCCGTCGGAAGGAGAGGAGGGAGCGGATACGGAGGCCCACGTGCCAGAAGGGTCCCTTGCAGTGGTGTGGTTATGTGCCTGCAATCCCAGAGTGTCCTCGAAGGACCTCAGATCTAACGAGCTCAGCCGGCAGCTGCACGTGGGACCAGCCCTCTGAGCTTCACTTGTTTTCCTCTGTGCCATCAGAAACCAATACGAAGATAAAATGGGAAAAAAAAAATCCCATTCACGGCACAGCCTGCCGAGAAACGCGTGAGACCCAGGCGGGGGCTGCGAGGCTAAACCCCAGCGTGGCTGGGATCCGTAGCCAGTGACAGCGCTAGTGATGGCGAGACCTCGCCCTCTCCCTCCTTGGGCCGTCGCTGTGTGCCAAGCGTTTCATTTTTGTTTTTAGTTGTTTCTATTTTTTGTAGAGATGGGGTGTCCTACGTTGCACAGGCTCTCCAACTCCCAGCCTCCAGGAATCCTCCAGCCTCAGCCTCCCAAAATGCTTCAGCTCATTCATTCATTCTCTCTAGACCAGGGTCTCCCCGTAGGCACCACAGACATCGGGGGCTGGAGCAGCCTCTGGGATGGGGGTGTCCTGTTGAGCAGCCTCCCCAGCCTCCACCCGTTACTTGGCAGGGGCACCCCCAGTGGTGACAACTAAAAATATCTCCAGACATCACCAGGGGCCCCCACCAGAGGCAGAGCCGCTCCCAGCTGAGAACCCAGCACCTGGTCCTGTGCGCCTGGTCTTCCGCACCTGTTTTGCCATGAGGTTGCTGAGGTGCAGAGGCGAAGCAGCTTGCCCAGCTGACCGAGCGCCTGGTGTCAGAGTCGAACTGCTCTTCTCCTCAGCTGGAGCCTTGGCGGGCGCCTCTGCTCCGGCCCCTTGGGGTGACCTGGCTTCCTGCCCTCAG
Seq C2 exon
GTCCTCTCCACCCGGATCCTGGCCATGAAGGCCTCGCTCTGCAAGCTGTCGCCCTGCACGGTGACCCGCGTGTGCGACTACCACACCAAGCTCTTCCTCATCGCCATCAGCTCCACCCTGAAGTCGCTGCTGCGCCCCCACTTTCTCAACACGCCTGACAAGAGCCCCGGCGACCGGCTGACCGAGATCTGCACCAAGATCACCGACGTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000175221-MED16:NM_005481:9
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:
PF116353=Med16=FE(12.8=100)
A:
NA
C2:
PF116353=Med16=PD(0.9=4.2),PF116353=Med16=FE(78.7=100)
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:
TGCTCTTCCTGCTGGAGTACT
R:
GTCGGTGATCTTGGTGCAGAT
Band lengths:
347-1866
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)