GgaINT0125648 @ galGal4
Intron Retention
Gene
ENSGALG00000003509 | C9ORF9
Description
chromosome 17 open reading frame, human C9orf9 [Source:RefSeq peptide;Acc:NP_001264636]
Coordinates
chr17:6718814-6719192:+
Coord C1 exon
chr17:6718814-6718961
Coord A exon
chr17:6718962-6718988
Coord C2 exon
chr17:6718989-6719192
Length
27 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGT
5' ss Score
7.8
3' ss Seq
GTGGAAGTGCTGTCACTGAGAAG
3' ss Score
-13.54
Exon sequences
Seq C1 exon
ATACCCCCACGACGTTGTGAATCACCTGAGCTGTGACGAAGCAAAGAATCACTTTGGAGGTGTGGTGAGCCTCATCCCCATTGTCCTAGATGGCGTGAAGGAGTGGCTATCCCACACTGAGAAGCTGCCACGACGCATGCTGTGTAAT
Seq A exon
GTGAGTGGTGGAAGTGCTGTCACTGAG
Seq C2 exon
AAGAGGGCACCCCAGGATGCAGCAGCTAGGGCAGCCATTTCCCCCAAAATACCTTCCGTCCACCCTGAAGTTCAGACCTCAGTTAGTAACAAAGATTGCATACAAGTGCAGGGGAATAAGCATGTCAGAAAGAAGCACATGACTGACAGAGAAAATCACAATGGGAAACTTAAAGGCCCCTGGAAACCACCTGGCAGACATGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003509:ENSGALT00000005551:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.080 A=NA C2=0.926
Domain overlap (PFAM):
C1:
PF151201=DUF4561=FE(28.7=100),PF0114712=Crust_neurohorm=PD(1.5=2.0)
A:
NA
C2:
PF151201=DUF4561=PD(2.9=7.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTATCCCACACTGAGAAGC
R:
CTTCAGGGTGGACGGAAGGTA
Band lengths:
114-141
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]