GgaINT0125645 @ galGal3
Intron Retention
Gene
ENSGALG00000004622 | C9orf114
Description
NA
Coordinates
chr17:5907955-5908352:-
Coord C1 exon
chr17:5908205-5908352
Coord A exon
chr17:5908021-5908204
Coord C2 exon
chr17:5907955-5908020
Length
184 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
3' ss Seq
TGCGCCTTGGTCTGTTTCAGGAA
3' ss Score
10.81
Exon sequences
Seq C1 exon
GCACATGCTTGTTGTATTTGGAGGTCTTCAGGGCTTGGAAGCTGGGGTTGATGCAGACCCAAACCTGGAGGTCACCGACCCGAGCGTCTTGTTTGACTTCTACCTGAACACCTGTCCCAGCCAAGGCAGCCGAACCATCCGAACAGAG
Seq A exon
GTAAGGCAGGGGCTGATGACATGGGAGCTGCAGTGCCTGTGTGCACAGAACATTTCTGTCTCTGGCAGGGTCACACAGCCAACCACGATGTTGTTCCCCACAGTGATGCCTCAGCCAAGAGCTGCTGGCTTGCCCAGCAGGCAGCTGAGGGCAGCAGTTCTGACTGCGCCTTGGTCTGTTTCAG
Seq C2 exon
GAAGCATTGCTGATCTCTCTGTCGGCACTGAGACCTCACATTGATGAGGCTGTGAAGACTCCCACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004622:ENSGALT00000007359:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.040 A=NA C2=0.136
Domain overlap (PFAM):
C1:
PF0259812=Methyltrn_RNA_3=FE(16.8=100)
A:
NA
C2:
PF0259812=Methyltrn_RNA_3=PD(3.4=45.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCACATGCTTGTTGTATTTGGAGG
R:
TGGGAGTCTTCACAGCCTCAT
Band lengths:
212-396
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]