GgaINT0036786 @ galGal3
Intron Retention
Gene
ENSGALG00000004627 | LAMC2
Description
NA
Coordinates
chr8:7849359-7850113:+
Coord C1 exon
chr8:7849359-7849577
Coord A exon
chr8:7849578-7849933
Coord C2 exon
chr8:7849934-7850113
Length
356 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
CCCTGTCCCTCCTTCCTCAGGCG
3' ss Score
10.95
Exon sequences
Seq C1 exon
GCACCGGCTACATTGACAACATCACCCTGGTGTCGGCACAGCCCGCTGCCGGCGTCCTCGCGCCTTGGGTGGAGCGGTGCCAGTGCCCCGATGGCTACCAGGGGCAGTTCTGCGAGCGGTGTGCTGCTGGCTACAGGAGGGATGCACCCCACATGGGGCCGTTCAGCATCTGCGTGCCCTGCAACTGCCATGGCGGAGGGATCTGTGACCCGGATACTG
Seq A exon
GTAAGAAAAATCGTGACCTCTCTGAGCTTATTGGGCGTGTGAGGTTGGAACAGACATCAGTGAGTGATGTGGAGATGTTTTGCTGCCCTTTTTGTCAGAACAGCCTGCAGTGTTGCAGCGTGAGCTCAAAGCAGTGCACTTTTCACCTTGAACAGTGATGCGGTTTTGGTGGAGCCTCAATGGAGTCTCCTCAGCCTCTTTGCTTCACATGCTGTATGTCCCCTGCTGTGTTTCGATTCCAAGGGAACAGCTGAGGCCGAGTTGCTCATCCTCCGAGCCATGCAGGGTGTCCAGCAGAGGGGACAGCTGGGCTGATGGCCAACTGGTTGTCCCATGCCCTGTCCCTCCTTCCTCAG
Seq C2 exon
GCGAATGCTACTCGGGAGATGAAAACGTGGGGAACAGCATCAGCTGTCCATTCGGCTCCTACAGAGACCCCCGGCCCCCGCACAGCTGCAGGGCATGTCCCTGTGGCCACGGCCAGAGCTGCTCAGTGCTGCCAGGCCAGGAAGAGGTTGTCTGTGACCATTGCCCTCCTGGAGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004627:ENSGALT00000007372:9
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:
PF0005213=Laminin_B=PD(18.3=32.4),PF0005319=Laminin_EGF=WD(100=44.6)
A:
NA
C2:
PF0005319=Laminin_EGF=PU(60.4=52.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
CAACATCACCCTGGTGTCGG
R:
AGACAACCTCTTCCTGGCCTG
Band lengths:
356-712
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]