GgaINT0144538 @ galGal3
Intron Retention
Gene
ENSGALG00000001978 | MED16
Description
NA
Coordinates
chr28:2326952-2327818:-
Coord C1 exon
chr28:2327713-2327818
Coord A exon
chr28:2327108-2327712
Coord C2 exon
chr28:2326952-2327107
Length
605 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
TCTCCCTTTATTTTTCCAAGTTG
3' ss Score
5.98
Exon sequences
Seq C1 exon
GTGTTGCTTTGTGCTTCCAACCAGAACAACAGCATTGTGGAGTGCTGGTCTCTGCGGAAAGAGGGCTTACCTGTCAACAACATCTTCCAGCAAATCTCTCCTGTGG
Seq A exon
GTGAGTTCCAGCACCAAGAACTCGAGTACAGGGGCACGGTCTGAATGAGAGTGGCAAGGCAGGGACTCCAATCCATTATCACACATTTATTTGGATTTCAGGTGTTCTCGGCCACACGCTCTGCTCCATCCATTTGTTTGCATCTCAAGCAACAAATTGATGGTTTCCAGGAAGTGGTTGATAGTTGTTACTTTCACTCAATAAAAGGCATTTTCTGTTGTGCTGTGCAACCACTCTTCCTGCTGAGAGCAAAGCAAGCTGAGCCTTCTGAAGGAAAAAATGCTGCAGTAGCTTCATTGAGCTGCCCTGTCTGCACATCTTTTCCACTTGATTTCAAATATAACAGCATCAGATCCGTGCTGTCTGCTCTGCTGAAGTGCAAAGGGTTGTTTAACATAAAGAATTGTTGATCGCCACCAGCAGAGCCTTCCATCAAAACTGATACAGCGAAACAAGTCATTATTTGTGTGCTTACTGAGCTCAGAAGAATGCAGGGAGGTGCAGGGAAACACACCGGTGTGCATAGAGAGGTGTGGGCAGAACTCAGGGAGGGGTGCTGTTCTCTGACCCCTTCAGACAGAGATGTCTCCCTTTATTTTTCCAAG
Seq C2 exon
TTGGAGACAAGCAGCCCATGATCCTGAAATGGCGAATTCTTTCTGCCACCAATGACTTGGATCGTGTCTCAGCTGTGGCTCTGCCCAAGCTGCCCATCTCCCTCACAAATACTGACCTGAAGGTGGCAAACGACACCAAATTCTTCCCTGGACTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001978:ENSGALT00000003081:5
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(7.3=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:
GTGTTGCTTTGTGCTTCCAACC
R:
CCAGTCCAGGGAAGAATTTGGT
Band lengths:
262-867
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]