GgaINT0020666 @ galGal3
Intron Retention
Gene
ENSGALG00000002722 | E1C8A1_CHICK
Description
NA
Coordinates
chr12:2307618-2307932:+
Coord C1 exon
chr12:2307618-2307738
Coord A exon
chr12:2307739-2307813
Coord C2 exon
chr12:2307814-2307932
Length
75 bp
Sequences
Splice sites
5' ss Seq
CAAGTCAGT
5' ss Score
2.74
3' ss Seq
CCTCCCCACCTCTCACCCAGGTA
3' ss Score
8.53
Exon sequences
Seq C1 exon
CCGTCTGCATGACCTGCAATGGGGAGGATTACCGGGGCTTTGTGGACCACACCGAGTCGGGGACCGAGTGCCAGCGCTGGGACCTGCAGCACCCACACAAGCATCCCTACCACCCCGACAA
Seq A exon
GTCAGTACCTGTCGCAGGGGTGTGCGGCTGCGGGGGTGGCAGCGGATATCTGTCACCTCCCCACCTCTCACCCAG
Seq C2 exon
GTACCCCGAGAAGGGTCTGGATGACAACTATTGCCGCAACCCGGACAGCTCTGAGCGGCCCTGGTGCTACACCACTGACCCGGCGCTGGAACGCGAGTTCTGTCGCATCCGTGTCTGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002722:ENSGALT00000004292:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.171 A=NA C2=0.024
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PU(48.7=92.7)
A:
NA
C2:
PF0005113=Kringle=PD(50.0=95.1)
Main Inclusion Isoform:
NA
Other Inclusion 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:
GAGGATTACCGGGGCTTTGTG
R:
CCGGGTCAGTGGTGTAGCA
Band lengths:
181-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]