GgaINT0144545 @ galGal4
Intron Retention
Gene
ENSGALG00000001978 | MED16
Description
mediator complex subunit 16 [Source:HGNC Symbol;Acc:HGNC:17556]
Coordinates
chr28:4719472-4720111:-
Coord C1 exon
chr28:4719895-4720111
Coord A exon
chr28:4719556-4719894
Coord C2 exon
chr28:4719472-4719555
Length
339 bp
Sequences
Splice sites
5' ss Seq
GAGGTACAA
5' ss Score
5.13
3' ss Seq
CCATTCTTCTTCCTGCATAGGGC
3' ss Score
10.03
Exon sequences
Seq C1 exon
GTCGTGAAGAAAGTCACATAACGGAGCCAGATGATACCCTGATAGATGAATGCTGCCTCCTGCCCAGCCAGTTGCTCATTCCCAATATTGATTGGTTGCCTATCAACGATGGCATTATCAGCAAGCTGCAGAACAAACAACTTGTGAGGCTGCAGTTTGGAAAAGCTCCTGGGCTCATTGGTCACACTGTGTCTTCCCAGTTTGATGCCTTTGTGAG
Seq A exon
GTACAAAGATGTGAAACAAATAGATGGTGTGGTTGGGATCTCTCCAGCTCTGAGAGGTCACTGGATCTGAGATGCCTGTGTCACAAGAGGGTTTATCCTGTGTGCTTGAGTTCCCAGTCATTAGTGAGTTAAAAGGCTGAAATGAGATGGCAGGAGGAGGGGGAAAAGTGCTCATGTGTGTTTAGATTGATGTCAGCGTGCCTTTGAATCCAGTGGCACTTTACAGGGTAAGCAGTCAAAGCCTGGGCCCCACTGGCCATTGAAATGCAGCTCACTGTCCTGGCAACAGCTTGTAGTAAATGATACCCTAGAAACGATGCCATTCTTCTTCCTGCATAG
Seq C2 exon
GGCACCTGGTCAGCCCAAAATCGATCATCTGAGAAGGCTTCATTTAGGAGCATACCCGACAGAAGAATGCAAGTCATGTACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001978:ENSGALT00000003081:12
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:
PF116353=Med16=FE(10.0=100)
A:
NA
C2:
PF116353=Med16=FE(3.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCGTGAAGAAAGTCACATAACGG
R:
ATGACTTGCATTCTTCTGTCGGG
Band lengths:
294-633
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]