DreINT0094801 @ danRer10
Intron Retention
Gene
ENSDARG00000040779 | med16
Description
mediator complex subunit 16 [Source:ZFIN;Acc:ZDB-GENE-090306-4]
Coordinates
chr11:14061349-14061888:+
Coord C1 exon
chr11:14061349-14061454
Coord A exon
chr11:14061455-14061732
Coord C2 exon
chr11:14061733-14061888
Length
278 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
3' ss Seq
TGTTTTCTTGCCATCTTCAGTAG
3' ss Score
6.62
Exon sequences
Seq C1 exon
GTCCTGCTCTGTGCATCTAGTCAGATGGGCAGCATTGTTGAGTGCTGGTCCTTGCGCAAGGAGGGTCTCCCTGTTAACAATATCTTTCAACACCGATCACCAGTGG
Seq A exon
GTAAGTTTACATGAATGAAAATTTGTTTGTTATGATAACACACCCATTGATGACTTGTAAAATACCATAATGCAAAGTTTTTAATTTTATTGCAACAATTACCTCTGTGCTATATGAACATTTACCTTTTATATTTATTTTATTTATGTTTATATGTTTTATATAATTTATTTTTATGATAATTCATTGTGGTGCATTATTTCCCACGATTGAAACTTGATTTGCTAATGCTATCTGAAAAAAAAAAAAAAATTTGTTTGTTTTCTTGCCATCTTCAG
Seq C2 exon
TAGGTGAAAAGCAGCCAATGACTCTAAAGTGGCGAATCCTCTCAACGACCAATGATCTGGACAGAGTGTCTGCTGTCGCTCTGCCTAAACTTCCAATCTCCATCTCAAACACTGATCTCAAAGTTGCCTCTGATACTAAGTTCTTCCCAGGCCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000040779:ENSDART00000059752:5
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(4.9=100)
A:
NA
C2:
PF116353=Med16=FE(7.2=100)
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:
GCTCTGTGCATCTAGTCAGAT
R:
CGAGGCCTGGGAAGAACTTAG
Band lengths:
257-535
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]