GgaINT0127851 @ galGal3
Intron Retention
Gene
ENSGALG00000004333 | E1BY40_CHICK
Description
NA
Coordinates
chr18:7974616-7975058:-
Coord C1 exon
chr18:7974921-7975058
Coord A exon
chr18:7974730-7974920
Coord C2 exon
chr18:7974616-7974729
Length
191 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
AAGTCCCCTTTGTGTTTCAGGAT
3' ss Score
8.73
Exon sequences
Seq C1 exon
AACTACGTTTTTACAATCGTCTTCAACAGTACCATGGTGCACTCCTTGCCAGTTTTGATGAACATCATTAGCAACCTCCTTCTACGTGCTCTGAACGTCACTGAGAGCATCCAGGTCTGGAGCCACCCCTTTGTCCAG
Seq A exon
GTGAGCCAACCCAAAGCCCTTCATCCAGGTGTGCGTCAGCTGCAGCAGAGCTGTCCTAAAGCAATGTTAGAATAATTGCAGTCGTGTTCCAACCATAAGTGTATAGGCTTTTTGGTGGGGTTGTCTTTTTTTTTTTTTTTTTTTTGGCCCATAAACGTTCTAGTGCTGAAGAAGTCCCCTTTGTGTTTCAG
Seq C2 exon
GATCTTCCAGACACCGTTTTCAAACTAGAGATCTATTTCGAAGCCGTGCTGCTGGGAATCATTGTGACTGGCATGCCGCCCTACTTTGCCATGGAGAATGCAGAAAACCGTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004333:ENSGALT00000006907:21
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:
PF126982=ABC2_membrane_3=FE(12.2=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(10.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGTTTTTACAATCGTCTTCAACAGT
R:
GGTTTTCTGCATTCTCCATGGC
Band lengths:
243-434
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]