GgaINT0124012 @ galGal4
Intron Retention
Gene
ENSGALG00000003852 | LAMC3
Description
laminin, gamma 3 [Source:HGNC Symbol;Acc:HGNC:6494]
Coordinates
chr17:6068293-6068806:+
Coord C1 exon
chr17:6068293-6068459
Coord A exon
chr17:6068460-6068617
Coord C2 exon
chr17:6068618-6068806
Length
158 bp
Sequences
Splice sites
5' ss Seq
TCCGTGAGT
5' ss Score
8.93
3' ss Seq
GCCCTCCTGGCTCCCCGTAGCTT
3' ss Score
8.47
Exon sequences
Seq C1 exon
GTGTAAATGCAACGGTCACGCCAGCGAGTGCGCGCCGGACGAGGCAGGACGGCTGGTGTGCGTGTGTGAGCACAACACGGCTGGCACCGACTGCCAGCACTGCCAGCCCTTCTACCAGGACCGGCCCTGGGCGCGCGGCACGGCTGAGGCTGCCAATGAGTGCCTCC
Seq A exon
GTGAGTAGCACCCGTGTTGGGCACGTGGCGGTGGTGAGGAGCGCGTCCAGCAAGGCTGCTCTGGTTGGGGAGCACCGCAGGGTCCCCATCCGCAGCATCACCCCGAGGACCCTCATCCGATCCCCACGGCCCCAACCAGCCCTCCTGGCTCCCCGTAG
Seq C2 exon
CTTGCGACTGCAGCGGCCGCTCGGAGGAATGCTTCTACGACGCGGAGCTGTTCCGCCGCACCGGGCGTGGGGGGCACTGCCGGAACTGCCGCGACAACACGGCCGGGCCACGCTGCGAGCAGTGCCGGCAGAACCACTACCGCTGGGAGCAGCAGGCCGCCTGCCAGCCCTGCCACTGCCACCCCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003852:ENSGALT00000006123:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=WD(100=94.7)
A:
NA
C2:
PF0005319=Laminin_EGF=WD(100=84.4),PF0005319=Laminin_EGF=PU(13.3=9.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGAGCACAACACGGCTG
R:
CTCCCAGCGGTAGTGGTTCT
Band lengths:
252-410
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]