GgaINT0039267 @ galGal3
Intron Retention
Gene
ENSGALG00000004526 | TNR
Description
NA
Coordinates
chr8:7357668-7358140:+
Coord C1 exon
chr8:7357668-7357757
Coord A exon
chr8:7357758-7357876
Coord C2 exon
chr8:7357877-7358140
Length
119 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGC
5' ss Score
8.8
3' ss Seq
CTGTAATATCCAACCCACAGAGC
3' ss Score
6.61
Exon sequences
Seq C1 exon
ATCTGGTGCCAGGGACAGAATATGGCATTGGGATTTCGGCTGTGATGGACAGCCAGCAGAGCGTGCCAGCAACCATGAATGCCAGGACCG
Seq A exon
GTAAGCCTAGCCCAATTGCTTTTGGCCTCTGAACACAGCCAGATTCTATGGCCCTCCAGCTCCTACAACCTCCATGGGACACCCATGGGAATAAAATATCTGTAATATCCAACCCACAG
Seq C2 exon
AGCTTGATAGCCCCCGGGACCTCCTGGTGACAGCTTCCACAGAGACATCCATCTCACTGTCCTGGACCAAAGCCATGGGTCCCATTGACCACTACCGTGTCACCTTCACCCCTGCCTCAGGGATGGCCTCTGAGGTGACAGTGTCCCGTAACGAGTCGCAGCTCACTCTCTCTGAGCTGGAGCCAGGGACAGAGTATACCATCTCCATCATCGCTGAGAGGGGACGTCAGCAGAGCCTGGAAGCCACCGTGGATGCTTTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004526:ENSGALT00000007207:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.387 A=NA C2=0.360
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(26.5=71.0)
A:
NA
C2:
PF0004116=fn3=WD(100=88.8)
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:
TTGGGATTTCGGCTGTGATGG
R:
GCTCCAGCTCAGAGAGAGTGA
Band lengths:
246-365
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]