GgaINT0036800 @ galGal3
Intron Retention
Gene
ENSGALG00000004627 | LAMC2
Description
NA
Coordinates
chr8:7856121-7856655:+
Coord C1 exon
chr8:7856121-7856220
Coord A exon
chr8:7856221-7856404
Coord C2 exon
chr8:7856405-7856655
Length
184 bp
Sequences
Splice sites
5' ss Seq
TGAGTAGGT
5' ss Score
3.27
3' ss Seq
TCCTTCTTCTTGTGCTCCAGACC
3' ss Score
9.38
Exon sequences
Seq C1 exon
ACTACCAAGGAAGCTCAAGATGTCCATACCAAGGCTGTCCAGGCTGGGGTGGTGGTGCAGGAGACGTTGGGTGTCCTGGAGGAGCTGCTGCGTCTGATGA
Seq A exon
GTAGGTTTTATCGTGTTGCTGTGGTGTGCAGCTGAAATCTGGGTACTGCTGGGCTCTGGGTGGGGGTTCTGAGTATTTCCTGGGAAGATGACACCTGTGGATGGAGCTGAAGTAGCTGGGAAGATCTAGTTCTCAGCCTCCATCCATGGTTTTCTCTTCCTTGTTCCTTCTTCTTGTGCTCCAG
Seq C2 exon
ACCAGCCTGGTGCTGTGGATGAAGAGGGCCTGAAACAGCTCGAGCTGAATTTCAGCAAAGCCAAAACCAAAACCAACCAGCTGAAGGAACAGATGTCAGAGCTCGAGCAGAGAGCCACGCTGCAGAAGGTCCGGGTACAGAAACTGGACAGCAGCATCGATGAGATCCTGGCAGACATTAGGAACCTGGAGGATATCCAGAGGAGCCTTCCTCCTGGCTGCTACAACACAAAAGCCATCGAGTTACCCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004627:ENSGALT00000007372:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.206 A=NA C2=0.133
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
TGTCCATACCAAGGCTGTCCA
R:
CATCGATGCTGCTGTCCAGTT
Band lengths:
242-426
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]