GgaINT0008012 @ galGal3
Intron Retention
Gene
ENSGALG00000007758 | F1NRB3_CHICK
Description
NA
Coordinates
chr15:11044010-11044363:-
Coord C1 exon
chr15:11044283-11044363
Coord A exon
chr15:11044119-11044282
Coord C2 exon
chr15:11044010-11044118
Length
164 bp
Sequences
Splice sites
5' ss Seq
AGAGTGGGT
5' ss Score
1.31
3' ss Seq
TCCTGCAAAGATCTCCTGAGAAA
3' ss Score
-11.72
Exon sequences
Seq C1 exon
GCGTTCGGGCAGTAACCTGAGTGGGGCCAGCGAGGGCCACCCTGAGGACTGGAACCTGGAGGACAGCGTGAGTTGGGCAGA
Seq A exon
GTGGGTGGGATGTCCAGTGAGATGAAATGGCTCTGGGACACCACCTGGGTCCCTGGCCGTGCTGGGTGAGTGTTCCTCAGACCCGTGCTCCTCCTCTTGCTTTGCCAGGTATAAGTAAGCTCGAATCAAAGCAGCGATAACGAGTCCTGCAAAGATCTCCTGAG
Seq C2 exon
AAAGAAAAGGAGACGGAGCCGCATCCCTGACAAACCCAACTACAGCCTTAACCTCTGGAGCATCATGAAGAACTGCATTGGCAAAGAGCTCTCCAAGATCCCCATGCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007758:ENSGALT00000012578:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.857 A=NA C2=0.162
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0123713=Oxysterol_BP=PU(5.0=51.4)
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:
GTTCGGGCAGTAACCTGAGTG
R:
AGGCATGGGGATCTTGGAGAG
Band lengths:
188-352
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]