GgaINT0114277 @ galGal3
Intron Retention
Gene
ENSGALG00000011992 | EP300
Description
NA
Coordinates
chr1:51684096-51684962:-
Coord C1 exon
chr1:51684723-51684962
Coord A exon
chr1:51684185-51684722
Coord C2 exon
chr1:51684096-51684184
Length
538 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGG
5' ss Score
8.76
3' ss Seq
TGACCCATTCCTCTTTGCAGTTG
3' ss Score
8.74
Exon sequences
Seq C1 exon
GATTATTTTGACATAGTGAAGAATCCCATGGACCTTTCTACTATCAAGAGGAAGTTAGACACAGGGCAATATCAAGAACCATGGCAATATGTAGATGACATCTGGCTCATGTTCAATAATGCCTGGCTCTACAACCGCAAAACATCCCGGGTATATAAGTACTGCTCAAAACTGGCCGAGGTGTTTGAGCAAGAAATTGACCCAGTTATGCAGAGCCTTGGTTACTGCTGTGGAAGAAAG
Seq A exon
GTAGGGAAAATGTTTTGGTTTTTTTTTTCTAGTCTGGTTCTTGCTTCCTGCTACTGGGGGGAAATGCAGCAATTGCAGTCGCTAGCAGCTACATCGTGTCAAGAATTCTAAATGCTTACCAGGGTTTAGCAATCTTGAGTAATTCTAGATTTCAGAATTTATGTATCTTCTAATGTTGTCTGTTGTTTTAGTTATATGTTCATATGTAAGCCCTTGCAGGGGGAGAAATTCAGCATCTGAAGAATTACATTGATGGTCAATGAAGAAGATGTTGTTGCAGAAGCATTCTCAATTTCAGTGTATGTTGAGGCTACATTGTGTTTCCATGGTCTTGATATGCTTTCCATTTTTGGAGAAAAGCTAACTTGAGAATAACAGCCCACTAAGCACTTTTTTGACTCTAGCACTTCGTAGCCTTGCTGCGCTGTGAGATCTGTGCACAGAATAAGGTGGTAATGGTTGGTGTCTGGGTTGTTTGCTTCCCACGGAGAGCAAGTAAAAACATATTAGTACTAAGATGACCCATTCCTCTTTGCAG
Seq C2 exon
TTGGAGTTCTCGCCACAGACTTTGTGTTGCTATGGCAAACAGCTATGCACAATCCCTCGAGATGCCACTTACTACAGTTACCAGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011992:ENSGALT00000019563:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.013 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043920=Bromodomain=PD(64.4=70.0),PF060018=DUF902=PU(28.6=15.0)
A:
NA
C2:
PF060018=DUF902=PD(66.7=93.3)
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:
ACATAGTGAAGAATCCCATGGACC
R:
TGTTCTGGTAACTGTAGTAAGTGGC
Band lengths:
318-856
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]