GgaINT0020667 @ galGal3
Intron Retention
Gene
ENSGALG00000002722 | E1C8A1_CHICK
Description
NA
Coordinates
chr12:2307814-2308185:+
Coord C1 exon
chr12:2307814-2307932
Coord A exon
chr12:2307933-2308022
Coord C2 exon
chr12:2308023-2308185
Length
90 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
GCTCTCCTCCATACAAGCAGAGA
3' ss Score
2.68
Exon sequences
Seq C1 exon
GTACCCCGAGAAGGGTCTGGATGACAACTATTGCCGCAACCCGGACAGCTCTGAGCGGCCCTGGTGCTACACCACTGACCCGGCGCTGGAACGCGAGTTCTGTCGCATCCGTGTCTGCA
Seq A exon
GTAAGTGTCTGCAGTAAGTGCCCTGGCCCATCTCTGGTTCCGGTGTCCTCGGTGCCACCCTCAGCCCGCCGCTCTCCTCCATACAAGCAG
Seq C2 exon
AGAAACGCCCGCGGCCCATCAACGTCACCACCGGCTGCTACAGGGGCAAGGGCGAAGGCTACCGGGGCCGGGTGAACGTCACCGTGTCGGGCATCCCCTGCCAGCGCTGGGACGCGCAGACACCCCACCGGCACCACTTCGTGCCCAGCAAGTACCCCTGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002722:ENSGALT00000004292:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.024 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PD(50.0=95.1)
A:
NA
C2:
PF0005113=Kringle=PU(73.7=76.4)
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:
GAGTTCTGTCGCATCCGTGTC
R:
GGTACTTGCTGGGCACGAAG
Band lengths:
181-271
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]