GgaINT1007656 @ galGal4
Intron Retention
Gene
ENSGALG00000004622 | C17H9ORF114
Description
uncharacterized protein LOC417203 [Source:RefSeq peptide;Acc:NP_001264604]
Coordinates
chr17:5282773-5283582:-
Coord C1 exon
chr17:5283423-5283582
Coord A exon
chr17:5282863-5283422
Coord C2 exon
chr17:5282773-5282862
Length
560 bp
Sequences
Splice sites
5' ss Seq
AAAGTAGGG
5' ss Score
2.67
3' ss Seq
CAGACTGTTCTCTCTTTCAGGAG
3' ss Score
10.94
Exon sequences
Seq C1 exon
GGCGGCACTACACGCTGAGCGTGGCCCTGCCGGGCTCCATCCTGAACAACGCGCAGTCGCTGGAGCTGCGGACGTACCTGGCCGGGCAGATCGCTCGAGCGTGTGCCATCTTCTGCGTGGATGAGATCGTGGTGTTCGACGAGCATGGAGAAGATGCAAA
Seq A exon
GTAGGGATGAGCTGTTTTGGTCTGCAGAAAGCTTCTCCTCTGCGCTCCTTCGGTCTTTTTTTTAGCTGAGATCGGGAAAGAAATGTCTGTACCCCGAGGAAGTGCTCCTACCACCACCATCACAGGGCCCTCTGGGGGCAGAGATGGTCACTTACCTGTGCTGGAGGCTGGGATACAGGGAAGATGGGGATGCTCTGAAGGGATGACACCTGTTCCTTTGACTTCTCATCTGGGCCTGTGCCTGCCTTCGCTGGCCAAGCACTGCAGTGCTGTAGAATCCAACTGTCAGGTTGTATCTAAAAACAGATACATAAAGATTAAAAATGACAACAACAAAAAAAACCCGAGTAAGATCTTTGACTTGGGGAGTTCCAAGTAGAACTTGTTAATAATCCGTACCTCTGGAGCAGCCCTTTTCTAAGGTAGCCCATTTATTTCTGTAGAGGTTGAGGGTGGAGGGAGCTGCCAGTCTTAGATTAAGAGAAGGGCTTGGTCTTCTGGAGACCTGACCTTTGGGGCTGTGCAGTGTTGTACTGAGTTCAGACTGTTCTCTCTTTCAG
Seq C2 exon
GAGCGTGGAAGGGGAATTTGAAGGAATTGGGAAGAGAGGCAAGGCTTGTGTGCAGCTGGCTCGGATACTGCAGTACTTGGAGTGCCCTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004622:ENSGALT00000007359:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.056 A=NA C2=0.097
Domain overlap (PFAM):
C1:
PF093445=Cas_CT1975=PD(38.4=79.6),PF0259812=Methyltrn_RNA_3=PU(16.8=90.7)
A:
NA
C2:
PF0259812=Methyltrn_RNA_3=FE(10.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGCACTACACGCTGAGC
R:
GAGGGCACTCCAAGTACTGCA
Band lengths:
247-807
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]