GgaINT0036059 @ galGal3
Intron Retention
Gene
ENSGALG00000003424 | E1C2D6_CHICK
Description
NA
Coordinates
chr8:5384357-5384727:+
Coord C1 exon
chr8:5384357-5384544
Coord A exon
chr8:5384545-5384649
Coord C2 exon
chr8:5384650-5384727
Length
105 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGG
5' ss Score
9.26
3' ss Seq
AGATGTTGTTCCTCCTGCAGGTG
3' ss Score
10.01
Exon sequences
Seq C1 exon
TCTGTACCCCATCCCCAGGTAAAAGTGACGATGAAGACAGTGTCTGCAAAATGGGCCCAGCCTCAGCGAAGGGAGCTGAGGAGGGGAAGGACCACAAGCGGCCCAAGCGCCCGCGCACCATCCTGACCACGCAACAGCGCAGGGCCTTCAAGGCGTCCTTCGAGGTCTCCTCCAAGCCCTGCAGGAAG
Seq A exon
GTATGGGGACACTGGGGGTGGCCCGGGGGCTGGGCAGTAGCTCTGCCCCCTCCTGGATCCCCCAAACCTTGTGTGAGTCCCACTGAGATGTTGTTCCTCCTGCAG
Seq C2 exon
GTGCGGGAGACACTGGCAGCCGAGACAGGGCTGAGCGTGCGCGTGGTGCAGGTCTGGTTCCAGAACCAGAGAGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003424:ENSGALT00000005411:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.635 A=NA C2=0.154
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(47.4=42.9)
A:
NA
C2:
PF0004624=Homeobox=FE(43.9=100)
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:
ACCCCATCCCCAGGTAAAAGT
R:
TCTGGAACCAGACCTGCACC
Band lengths:
247-352
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]