GgaINT0125636 @ galGal3
Intron Retention
Gene
ENSGALG00000004622 | C9orf114
Description
NA
Coordinates
chr17:5911857-5912144:-
Coord C1 exon
chr17:5912070-5912144
Coord A exon
chr17:5912003-5912069
Coord C2 exon
chr17:5911857-5912002
Length
67 bp
Sequences
Splice sites
5' ss Seq
GCTGTGGGG
5' ss Score
-4.88
3' ss Seq
GGCTCGGCCCTTAACCGGAGGGG
3' ss Score
-7.43
Exon sequences
Seq C1 exon
GAAGGTGAACTGGCGGCGCTGGAAGCAGGAGAGTAAGGCCGAGGGTCCCTCGGGGTCGTGGAGGGGAGCGGAGCT
Seq A exon
GTGGGGGGGCCCAGTGGGGCCCGGTGCTGCCTGCCCTGAGCGCTCCCGGCTCGGCCCTTAACCGGAG
Seq C2 exon
GGGCTTTGTGTCCGTGCCAGGGAAAGCAGAGAAGAAGAAATGGAAGGAGCTGAACCTGCTGAAGAAGCTGGAAAAGCAGCGGGTGCGGGAGCTGGCCGAGAAACAGGCTGAGGAGGAGCAGCAGCAGCAGGAGGAGGAGGACAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004622:ENSGALT00000007359:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.115 A=NA C2=0.360
Domain overlap (PFAM):
C1:
PF093445=Cas_CT1975=FE(19.1=100)
A:
NA
C2:
PF093445=Cas_CT1975=FE(37.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAAGCAGGAGAGTAAGGCC
R:
TCCTCCTCAGCCTGTTTCTCG
Band lengths:
173-240
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]