BtaINT0091453 @ bosTau6
Intron Retention
Gene
ENSBTAG00000047217 | MED16
Description
mediator complex subunit 16 [Source:HGNC Symbol;Acc:HGNC:17556]
Coordinates
chr7:45048153-45048676:-
Coord C1 exon
chr7:45048569-45048676
Coord A exon
chr7:45048323-45048568
Coord C2 exon
chr7:45048153-45048322
Length
246 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGG
5' ss Score
9.35
3' ss Seq
AATCTCCCCCTTCTCCCCAGGCT
3' ss Score
9.14
Exon sequences
Seq C1 exon
ACCTGACCCGCATGATCCATATCCTGGACACTGAGCATCCCTGGGACGTGCACTCCATCCGCTCAGAGCACAGTGAGGCCATCACCTGCCTGGAGTGGGACCAGTCCG
Seq A exon
GTGAGGGCAGCCCCCACCCTGAATGCCAGGGCTGCCTGCTCTGTCTTTCTGGCCTTGGCCCTGGGCTCAGAGCTGGGACTTGAAACCCTGACCTGTGCCTTTGAGGCTTCTGCTCTTCTCGCCCCTGTTTCTGAACTCGCCTGTGCTGGTCCCTTGCTCTACACCTCCAGTCTGGCCCCCCACCCTGATGGACTGTGGAGATGGGGCTTGTGACAGAGGTTTGCCCAATCTCCCCCTTCTCCCCAG
Seq C2 exon
GCTCTCGTCTGCTGTCAGCTGATGCCGATGGGCAGATCAAGTGCTGGAGCATGGCTGACCACCTGGCCAACAGCTGGGAGAGCCCCGTGGGCAGCGTGGTGGAAGGGGACCCCATCGTGGCCTTGTCCTGGCTGCACAACGGCGTGAAACTGGCCCTGCACGTGGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000047217:ENSBTAT00000064681:3
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:
PF0040027=WD40=PU(56.4=59.5)
A:
NA
C2:
PF0040027=WD40=PD(41.0=28.1),PF116353=Med16=PU(4.2=52.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTGACCCGCATGATCCATA
R:
CTTTTCCACGTGCAGGGCC
Band lengths:
278-524
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]