GgaINT0144546 @ galGal4
Intron Retention
Gene
ENSGALG00000001978 | MED16
Description
mediator complex subunit 16 [Source:HGNC Symbol;Acc:HGNC:17556]
Coordinates
chr28:4717570-4719555:-
Coord C1 exon
chr28:4719472-4719555
Coord A exon
chr28:4718456-4719471
Coord C2 exon
chr28:4717570-4718455
Length
1016 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
TCTGCTTCCTTCCTCTCCAGGTG
3' ss Score
13.39
Exon sequences
Seq C1 exon
GGCACCTGGTCAGCCCAAAATCGATCATCTGAGAAGGCTTCATTTAGGAGCATACCCGACAGAAGAATGCAAGTCATGTACCAG
Seq A exon
GTAAGTGATGCAGGCGTAATCCCTTCGGTGCAGAGGAGGTCTTGGCAGGAACTCAAAGTGTCTTTTGTCATTCAAAAGCTCCCTTGGTCTCTGTTTACCATCCCAGCTGGTATCCCAGTAACTCCTCATGTGATTTACGCCTGCAGGAGGAAATGCTGCTTCTAAATTAAGGCTTTTCGTTTATGGCACTGCCACTTTGCATTTAAAGAAAGCACTTGTGGGTATGTTTAAGATATCCCTGATGTGGAAGACGAAGATCCTTAAATGCTCGTTGGAGAGCAGCAGGGCTGACTCAGGATAGCTGCTACTATCATTGCAGTGTGGCTGTTAAGTTTATACCGCCTCTCCTTGCAGAGTAACCACAGCTCTTTGAGAATTAACTTCATTCCTCACTCTCAGTTGAGATAGTTTTCATCTAAGGGCTGAATACTGCACCGTGGGGTAAATATGGTGTTGCTTTAACAGAAAAATATGAGGACAGGCAAATGAGATGGGCAAACAGAGACCAGAATTTGCCTGTAGGGTCTTTATTGGTAATGGGATCCCTGGCTTGGCCTGCAGGCTCCCCTGTTCCTGGGGAGGAGGCAGTGAGTGTAAACAATGACAGCACCCACAGTACTGTTTTTGGATGATCTTTCAAAGTTCAGTTTGCTTTTGGAGTTCTTTTGTGCTGTCCCCTCACAAAAAGAGCACTGAAACAGCAGTGTGCGTCCATCCCATCGTGTGAATCAGCTCTAATTATTAGCTTTAATAGAGAGCCTCTGCAGCAAATCATTTCTATAAGATCGAGTGTCTGCTGTTTTATGTATAAATAGCAGCTGGGGGCTGTTGTTATGAAGACATCCCTCTGTTCCAAGATGTTTCAGTGCTCAAAAACATCACCTGCAAACGGCAGATGATGATTTCCTCCTCACTCCCTGCTCAGTGCACGGCCAGAAGTGCCAGCATTGCTGCTTTGTTTCCTGGCCTTCCCACCTTTGTGCCATGCTGTACCTCTCTGCTTCCTTCCTCTCCAG
Seq C2 exon
GTGTGGCTGCGTTACGATGCTGAAATCCCCAAACAAAGTCACTGCTGTGAAGCAATGGGAGCAGCGCTGGGTCAAAAACTGCCTGTGTGGGGGGCTGTGGAGGAGGATGCCCCTGAGCTATTCCTGAGAGCACCTCCGTGGGGCACGGAGAGAGCAAATGGAAGAGCTGGAAGTGCTTTGGGAACGAGGAGCTGCAGCCCTTGTGAGGCAGTGCCCAGTGGTTGGCTGGGAGTGTTCTGTTGGCTGATAGGTTTTTCTTGCCTTGGTCTTTCAGCTTCAACCCTTTCTGCCCTAAAAAGAAAAGAGAGGAGGAAGGGAAGGAGCTTTTGAGGGGCTCCCTCTAGGCTCTCTACCCTGTGATGTTTTCCCATTGCCACCGAAGGCACTGTCAGCTGGAAGCCAAGGGGCAGGGAGGGGGGGAACCTGCTGCCCTCGTGTGTGTCTGGGCTGACCAAGCAGAACGACTGAGCCCTGCACTCAGCCATGGCACAGTCTGAGTGGTGATGGGGGGGCTCTGGGGGTACACAGAGAATCTCCAAAGAGAGAGGAACAAACACTTGGTTCCTTGTGTTTCTCCTTTGCTGTGGGCTGCTTAGGAACTGGGCAGCCCACGCTATGCTTCCTGTTTCCTTCTGCATCTCCATGCTTTGAGTGAGCTTGGCTCCTCTGATGGGAGTCTCCATCATTGCACGTATCTGTGTTCTGATGCATGGAGGAGCAGGAACACGAGGCTGGCTGCCTGGAGCAAACCCATCCACGTAACTCTGAGCTCTTCTGTAAATAAAAGTTAATTTGGTACAGAATGTTTGGTTTGTTTGCAGAACTTCAGCCCTCTTTTCATGTGACTTTCTCTGTGCTTTGTGCCCAGGGCTGCTGATGCATTAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001978:ENSGALT00000003081:13
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
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCCGACAGAAGAATGCAAGT
R:
AAGCTCCTTCCCTTCCTCCTC
Band lengths:
357-1373
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]