GgaINT0138728 @ galGal3
Intron Retention
Gene
ENSGALG00000021273 | E1C8L4_CHICK
Description
NA
Coordinates
chr24:5534531-5534921:-
Coord C1 exon
chr24:5534779-5534921
Coord A exon
chr24:5534696-5534778
Coord C2 exon
chr24:5534531-5534695
Length
83 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CTCTGCCCCCTCCGTGCCAGGGG
3' ss Score
7.71
Exon sequences
Seq C1 exon
ATAACACCTCCCCAAAGCTGCGGGAGGCCGAGGTCAAACTCATTGACTACAAGATCTGCAACAGTGACAAGGTGTACGAGGGCTACCTGACCCCGCGCATGATGTGCGCTGGGTACCTGCAGGGGGGGAAGGATGCGTGCCAG
Seq A exon
GTGAGCGGGGCAGGGCTGTGCCTGGGGGCACGCAGGGATGCCCTCTGCTTGCTCTCCTCACCACTCTGCCCCCTCCGTGCCAG
Seq C2 exon
GGGGACAGCGGGGGGCCCCTGGTGTGCGAGGACAACGGCCGCTGGTACGTGGCTGGTGTGACGAGCTGGGGGACGGGATGTGGCCAGAAGAACAAGCCTGGGGTATACACACGTGTGACGAAACTCCTCGGCTGGATCTACAGCAAAATGGAGGTGAGGCTGGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021273:ENSGALT00000011876:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.125 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(20.5=100)
A:
NA
C2:
PF0008921=Trypsin=PD(19.7=81.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGACAAGGTGTACGAGGGCTA
R:
GGCTTGTTCTTCTGGCCACAT
Band lengths:
177-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]