GgaINT0125637 @ galGal3
Intron Retention
Gene
ENSGALG00000004622 | C9orf114
Description
NA
Coordinates
chr17:5911605-5912002:-
Coord C1 exon
chr17:5911857-5912002
Coord A exon
chr17:5911765-5911856
Coord C2 exon
chr17:5911605-5911764
Length
92 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCAG
5' ss Score
3.97
3' ss Seq
TGTCCGCCCTCTGTCCCCAGGGC
3' ss Score
13.9
Exon sequences
Seq C1 exon
GGGCTTTGTGTCCGTGCCAGGGAAAGCAGAGAAGAAGAAATGGAAGGAGCTGAACCTGCTGAAGAAGCTGGAAAAGCAGCGGGTGCGGGAGCTGGCCGAGAAACAGGCTGAGGAGGAGCAGCAGCAGCAGGAGGAGGAGGACAAAG
Seq A exon
GTGCAGCTGCTGAGGGGGCTGAGGTGGAAGGGTCCGTGAGTGCCACACACAGCCGTCAGGCCGCAGCCCTGCTGTCCGCCCTCTGTCCCCAG
Seq C2 exon
GGCGGCACTACACGCTGAGCGTGGCCCTGCCGGGCTCCATCCTGAACAACGCGCAGTCGCTGGAGCTGCGGACGTACCTGGCCGGGCAGATCGCTCGAGCGTGTGCCATCTTCTGCGTGGATGAGATCGTGGTGTTCGACGAGCATGGAGAAGATGCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004622:ENSGALT00000007359:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.360 A=NA C2=0.056
Domain overlap (PFAM):
C1:
PF093445=Cas_CT1975=FE(37.4=100)
A:
NA
C2:
PF093445=Cas_CT1975=PD(32.8=79.6),PF0259812=Methyltrn_RNA_3=PU(16.8=90.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCAGGAGGAGGAGGACAAAG
R:
TTCTCCATGCTCGTCGAACAC
Band lengths:
173-265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]