GgaINT0127863 @ galGal3
Intron Retention
Gene
ENSGALG00000004333 | E1BY40_CHICK
Description
NA
Coordinates
chr18:7969981-7970477:-
Coord C1 exon
chr18:7970383-7970477
Coord A exon
chr18:7970101-7970382
Coord C2 exon
chr18:7969981-7970100
Length
282 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
TACCCTTTGCTGTTTTGCAGGAG
3' ss Score
10.12
Exon sequences
Seq C1 exon
CTCTGCTTCGCCCTGAGCATGCTGGGCAGCCCCCGCGTCACGCTGCTGGATGAGCCCTCCACCGGCATGGACCCCAAGGCCAAGCAGCGCATGTG
Seq A exon
GTGAGTGCCCAGCGGGAAAGCAACCCTCATACCAGCAGCAGTGTGTGCTGGGACAGCAAGCCTGTGTTGCTGCCAAGTGCTGACATTCAGGTGCCTTTAACCACAACAGCTGAAGGACTGCAGAAACCAGCAGGAAGCCAACACGGAATGTGTTTCTCTCTTACAGCAGCTCTGTTTGCTGATTCCCTTTGTAGCATCTTCCCGACATCTCATGCGCAGCTCCGAAGGTGGTTTTGCTGCTCCTTCAAGTCACGTCCTGCTTTACCCTTTGCTGTTTTGCAG
Seq C2 exon
GAGGGCGATCCGAGCAGCCTTCAAAAACAAGGAGCGGGCGGCCATCCTGACCACACACTACATGGAGGAGGCGGACGCGGTGTGCGACCGCGTGGCCATCCTGGTGGCCGGGCAGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004333:ENSGALT00000006907:33
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.188 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=PD(13.7=62.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCTGCTTCGCCCTGAGCAT
R:
CGTCCGCCTCCTCCATGTAG
Band lengths:
172-454
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]