GgaINT0127852 @ galGal3
Intron Retention
Gene
ENSGALG00000004333 | E1BY40_CHICK
Description
NA
Coordinates
chr18:7974156-7974729:-
Coord C1 exon
chr18:7974616-7974729
Coord A exon
chr18:7974327-7974615
Coord C2 exon
chr18:7974156-7974326
Length
289 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAC
5' ss Score
8.14
3' ss Seq
TTTTCTTTTCCCTACCACAGCTC
3' ss Score
9.74
Exon sequences
Seq C1 exon
GATCTTCCAGACACCGTTTTCAAACTAGAGATCTATTTCGAAGCCGTGCTGCTGGGAATCATTGTGACTGGCATGCCGCCCTACTTTGCCATGGAGAATGCAGAAAACCGTAAG
Seq A exon
GTAAACTCTGTATGAAGATCACCAGATCTTCACAGCCCTGGGGTCTCTTGGGAATATCTTGGGAAGTGTTCTTGGTAGTGCCTTGCAAGGCACAAGGAGCAGCACAGCTCTGGCGCTGGCGGCGTTGGGTAGAGCAGATTTCAAAAAGCCCTTTGGCTCTCCATGGGAATGGAATGATAAATGGGCAGCACACTCTGATCTCATGTCCAAGTGATGCTTTGTAGCTAAAACTGGGATCCCACTCATGCACCAGAGGTGAGCAGTGTGGGTTTTCTTTTCCCTACCACAG
Seq C2 exon
CTCAGGGCGTACACACAGCTGCAGATAGCGGGGCTCTACCCGTCGGCGTACTGGGCTGGCCAGGCCCTCGTGGACCTCCCGCTGTTCTTCTCCATCCTCGTCCTGATGCTGGGCAGCCTGTTTGCCTTCCACTATGGCATTTATTTCTATGCTGGCAAGTTCATGGCCGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004333:ENSGALT00000006907:22
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(10.0=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(15.2=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:
GATCTTCCAGACACCGTTTTCA
R:
ACGGCCATGAACTTGCCAG
Band lengths:
284-573
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]