GgaINT0036795 @ galGal3
Intron Retention
Gene
ENSGALG00000004627 | LAMC2
Description
NA
Coordinates
chr8:7853963-7854455:+
Coord C1 exon
chr8:7853963-7854107
Coord A exon
chr8:7854108-7854305
Coord C2 exon
chr8:7854306-7854455
Length
198 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
CCCCCCTCTTTGCGTTCCAGGGG
3' ss Score
10.76
Exon sequences
Seq C1 exon
GTATGAGGAGCTGAAGTTGCTGGCTGGAGGCCTGGAGGCTGATGCCAACAGGATAGCCACTGAGGCAGACAAGGCTTATCAGAGCAGCCTGATGCTCCTCAGCTCTCTGTCTCGCCTGACCAAGACCAGTTTTGGGTCCTTTGAG
Seq A exon
GTGAGAGCTTTGTCCCTGTGGGACCAGGACATCCCCTTTCATTCACTGCCCTCCCTCCTGCCCTTCTCGCAGCTCAGCCCTCTCCAGGGCTCTGCTCCAGCTGGGCAGGCACTGCTTATGCCATTCCTCGTGGGTTGCCTGCGAGCAGTAGGGTGACACTGGGTCTCCAAAACAGTGACCCCCCTCTTTGCGTTCCAG
Seq C2 exon
GGGGAGGCAGCCCAACTGAAGCAGGATGCAGCAGCTCTTCTGAGCACGGTGGACACCTACATGGCCCAGTACAGGCAGCTGCAGAGCCGCATTGGCCTCTGGGAGGAGGAAATCAAGAAGCTCTTGCAGAGAGGAGAAGGCGAGAGAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004627:ENSGALT00000007372:18
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion 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:
GCCAACAGGATAGCCACTGAG
R:
TCTCTCGCCTTCTCCTCTCTG
Band lengths:
249-447
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]