GgaINT0124032 @ galGal3
Intron Retention
Gene
ENSGALG00000003852 | LAMC3
Description
NA
Coordinates
chr17:6694323-6694799:+
Coord C1 exon
chr17:6694323-6694567
Coord A exon
chr17:6694568-6694652
Coord C2 exon
chr17:6694653-6694799
Length
85 bp
Sequences
Splice sites
5' ss Seq
AAGGTCTGA
5' ss Score
4.3
3' ss Seq
CCCACCTCTGTCATTGGCAGAGG
3' ss Score
7.39
Exon sequences
Seq C1 exon
CCTGGGTGACTGCACTGGGTGCCCAAAGGTTGGGTGTCCCCACAGGCATGAGGAAGGTGTTGGGGCATCGGAAAGGTCGTACTGCCCTGAGAAGGAGAATGGCACAAGTGCGGGACAGAGCGATGGTGGAGGCCCAGAAGAAGATTAAACAGGCAGAGAAAATGCTGGGAAACTCCTTGTCTGTCTCCAGTGCGGCCAGGAGGAAGGCAGGGGAGGCTGTGCATGTTGCTGGGGAGAGCAGTAAG
Seq A exon
GTCTGAGCAGTGGGATGGGGGTGCGGGGAGCAGGACCCCAGCTGCCGTCTGCTGGGGTGACTGTCCCCACCTCTGTCATTGGCAG
Seq C2 exon
AGGGCCCAGGCTGTACTGCAGGGCAGCAAGCAGGCTCGCAAGCACACCAGGACGCTCGCCACACGTGTCAGCGAGACCCAGCAGGAGCTGTACCGGCAGCAGCGCGTGGCTGAGGAGCTCAGGGGGAGCCTGGAGGAGGCAGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003852:ENSGALT00000006123:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.634 A=NA C2=0.898
Domain overlap (PFAM):
C1:
PF102344=Cluap1=PU(33.3=51.2)
A:
NA
C2:
PF102344=Cluap1=FE(38.1=100)
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:
ACAGGCAGAGAAAATGCTGGG
R:
GTCTCGCTGACACGTGTGG
Band lengths:
174-259
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]