GgaINT1016556 @ galGal4
Intron Retention
Gene
ENSGALG00000003852 | LAMC3
Description
laminin, gamma 3 [Source:HGNC Symbol;Acc:HGNC:6494]
Coordinates
chr17:6075635-6076050:+
Coord C1 exon
chr17:6075635-6075779
Coord A exon
chr17:6075780-6075888
Coord C2 exon
chr17:6075889-6076050
Length
109 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TGGTAGCTCTCTCCCCACAGCAG
3' ss Score
7.56
Exon sequences
Seq C1 exon
GTATGAAGAAATCCAGCAGGCGTGGAAGGAGCTGGGTGCTGGCATGGAAGAGGTGGCAGTGGAAGCCAGGAGAACTCTCACAGCCATCCAGGAGGCAAATGTGGGCATGGCCAAGAAGCTTCAGCAGGTGCCTGCTCCAGGGCAG
Seq A exon
GTGAGCAGCACACGGCTCCTGTTTGCATCCCATACTGTACCCATCTGTGTTGCTCCCTCCCGTGCTGGGAGATGCCCTCCTGGAGTCGTTGGTAGCTCTCTCCCCACAG
Seq C2 exon
CAGGTGCTGCTGGTGCAAGCTGAGGCCCTAGCACAGGAGGTGGCAGCACTGGAGCAGACAGTGCAGGCGCAGGAGCCAGCAGCTTGGCAGAGCATCACAGCGTCCCTCAGCATGGCAGCTGGGCTGCGTCGGGACCTGCAGGGCACTCGAAGCTTTGTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003852:ENSGALT00000006123:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.041 A=NA C2=0.037
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTGGAAGCCAGGAGAACTCT
R:
TGTACAAAGCTTCGAGTGCCC
Band lengths:
249-358
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]