GgaINT0047061 @ galGal3
Intron Retention
Gene
ENSGALG00000009172 | E1BQU1_CHICK
Description
NA
Coordinates
chr7:16538396-16538943:-
Coord C1 exon
chr7:16538806-16538943
Coord A exon
chr7:16538460-16538805
Coord C2 exon
chr7:16538396-16538459
Length
346 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
TCAGACAAGCTTTTTTTCAGGTT
3' ss Score
2.21
Exon sequences
Seq C1 exon
GTTCTCATAGCTGCTTTTGCAGCGTCGGGTTATGCCTCTACGTATTTCAGAGCAGGAAGCAAGCCATTTAACCCCGTGCTTGGTGAAACTTACGAATGTATTAGAGAAGACAAAGGATTTCGATTTTTCTCAGAGCAG
Seq A exon
GTAAAGCTTGTTTCTAGATGGATACTGATGTTTAGGCTTCTTTGTTTGACAGAGTGACCTTGTTCCTTCTTCCGAGTTAAAATGGTTTGTTTTCTTAATAGTAAAGAAAGGTAGCAAGTGTGAGTGAATCCATTAAATACTAGAAGGTATCTGTTTTTTATAGTAGTCTCTGTCATAGTGTTTTAAGCAGACGATGTAAAACTGAACTTTGAGTTGTCATCTGGTTTCATAGCAACATAGGTTAATAAATAATGTGGGCTACTTAATGTTTTTATATTGCAGTAACAGTTGTATTGTCTTAGGAATGAAAATTAATTGTTTTTAACTCAGACAAGCTTTTTTTCAG
Seq C2 exon
GTTAGCCACCATCCTCCCATTTCAGCCTGTCACTGTGAATCGAAGAACTTTGTGTTTTGGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009172:ENSGALT00000014942:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0123713=Oxysterol_BP=FE(12.8=100)
A:
NA
C2:
PF0123713=Oxysterol_BP=FE(6.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTTTGCAGCGTCGGGTTAT
R:
CTTGCCAAAACACAAAGTTCTTCG
Band lengths:
190-536
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]