DreINT0094797 @ danRer10
Intron Retention
Gene
ENSDARG00000040779 | med16
Description
mediator complex subunit 16 [Source:ZFIN;Acc:ZDB-GENE-090306-4]
Coordinates
chr11:14085242-14086043:+
Coord C1 exon
chr11:14085242-14085325
Coord A exon
chr11:14085326-14085657
Coord C2 exon
chr11:14085658-14086043
Length
332 bp
Sequences
Splice sites
5' ss Seq
AAGGTATCA
5' ss Score
7.22
3' ss Seq
TGTCTCTCGGAACTGTTTAGGTG
3' ss Score
5.6
Exon sequences
Seq C1 exon
AAGTCCAGCGTCACAGAGAGTGGATCACCTGCGATGTTTACATCTGGGCATCTCTCCAACCGAGGATAGCAAAGCTTGCACAAG
Seq A exon
GTATCACATTAGAATTATTCCTCTAATTAATTTAAAGTAATTCATGAATAAATATATTTTTACATGCTCCATTTTTTTAATGTCTGTGATGATTCCTCTGCAAATATGCATGCATGTGATGTCAACATAGTAATATTTTATATATTTTTCATCCTGAGTTATTGTATGCGCAACAAAAAATATCACTGCTGAATACAGTTGGTTCTAAGAATAGTAAGTTATACTGGAACTGTTATAATTAAATGACACTTGTACAGAGAGACTGCCTTGAAAACTCTATATTTAGCACAGCAGCACTAGCCAATGAGGTCTTGTCTCTCGGAACTGTTTAG
Seq C2 exon
GTGCGGCTGTGTCACCATGTTAAGATCTCCAAATAAAACAAATGCCACGAGACAATGGGAGCAGCGTTGGATCAAGAACTGTCTGTGTGGAGGTCTCTGGAGAAGAATCCCCTCCACATTAAGCTAAAGACCACACCATTTGGAAATGTTAAAGCAGCATGGGTCTCCTATTATAAACCAATGTATAGAAATGCACAATAAAACAGGCCACCATATTTTTAAAATATGTCCTACAGGACTTACAGTATTTCCCAGTCAATTTGTCTGAGAGTGAATGCTGTATATTTTTTTCCAGTTGTAAATATGAATTGTGTGAATTGTTTGTAATTTTGTAGTATGTGATATAATTTTTTGTAATAAATAAAATGACAAATGTCATTATAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000040779:ENSDART00000059752:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF116353=Med16=FE(3.9=100)
A:
NA
C2:
PF116353=Med16=PD(4.9=81.4)
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:
AAGTCCAGCGTCACAGAGAGT
R:
CACTCTCAGACAAATTGACTGGGA
Band lengths:
357-689
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]