GgaINT0095189 @ galGal3
Intron Retention
Description
NA
Coordinates
chr2:329744-330182:+
Coord C1 exon
chr2:329744-329932
Coord A exon
chr2:329933-330011
Coord C2 exon
chr2:330012-330182
Length
79 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGA
5' ss Score
7.4
3' ss Seq
CACAAGGGCCTTTCCCACAGGAG
3' ss Score
6.07
Exon sequences
Seq C1 exon
GATGGCCCAGGGGTCCCGCTTGTCCCACCAGCCCCCACCACAGCCCTCGCTCCCCACCAGAGCCACCCCTGCCCCGGCTCCTGTGCCCCCCGGACCAGTTCCTCTGTGATGCCCTGGGCTGTGTGGATGCAGCCATGGTCTGTGATGGGCAGCAGGACTGCCTGGATGGCTCTGATGAGGCGCACTGCG
Seq A exon
GTGAGACCCCCATGATTCCCTGCCCCCACAGAGCCTGGGGTTGCTGAGCCCCAGCTCAACACAAGGGCCTTTCCCACAG
Seq C2 exon
GAGCCCTCCCCACCTCCGGCAGCTCCCCGTCACCCCTGGCCTGGCCCAGCGGTCCCTCACCCACCTGCTCCCCCAAGCAGTTCTCCTGCGGCACGGGTGAGTGCCTGGCCCTGGAGAAGCGCTGCGACCTGAGCCGTGACTGTGCTGATGGCTCCGATGAGAGCAGCTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004919:ENSGALT00000039375:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.355 A=NA C2=0.138
Domain overlap (PFAM):
C1:
PF0005713=Ldl_recept_a=WD(100=56.2)
A:
NA
C2:
PF0005713=Ldl_recept_a=PU(92.5=63.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTTCCTCTGTGATGCCCTG
R:
AGGAGAACTGCTTGGGGGAG
Band lengths:
181-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]