GgaINT0098653 @ galGal3
Intron Retention
Gene
ENSGALG00000015056 | LAMA3
Description
NA
Coordinates
chr2:106345006-106345803:+
Coord C1 exon
chr2:106345006-106345146
Coord A exon
chr2:106345147-106345638
Coord C2 exon
chr2:106345639-106345803
Length
492 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTAT
5' ss Score
2.71
3' ss Seq
TTTCCTTTATACGTTTTCAGTTT
3' ss Score
9.38
Exon sequences
Seq C1 exon
GAGAATGTTGAAGGTGCAGAATGTGATATTTGCCGACCCGGATCATTTTATCTGGACCCTTCTAATCCCAAGGGATGCACCACTTGTTTTTGTTTTGGGGTAACAAGCAGCTGTCGCAGCACAAATCGTCGTCGAACCAAG
Seq A exon
GTGTATTTGATAGTTTTTTTTTTTCTTTGCTGTCATGAGCCTACATTTATTCCATCATGGAAATGCCAGTTTTCTTCTAAAATTGCAAATATTTTTCATTAGTTGTGAAGGATGAGAAATGTTCTGTAACCAGTAGTGCAGATTTGGTGCAGCATGATTAAATCCTAGGTATAGTCTGAATATAAGTGCCTTTTAGTTGAAATAACCCCTTTCCCTTTTTTGTAGCAAACTTACATTGATGTTTAGAAGATTTCATCTAATGGTTACCAAAGACTGTTCTTGAAAACCTATCTACCTGTTCATCTTACTACTCTGAGATGTTCTGGTAGATATGCATTATGCTTTTTTTCCCCCAGCATAATAATAAAGAAGACGATGTTAGTCCTTAATGAAACAAGAGCCAAAGCCTAAACAGTTCCCTCCCCATGTTATAGTGTTAGTTAAGCTTAGTAGAAGATGAAACAAACTTTTATTTCCTTTATACGTTTTCAG
Seq C2 exon
TTTGTGGACATGAGGAACTGGCGCTTGGAGGCAATGGATGAAAATATTGACATTCCTGTCACTTTCAATCCAGTCAGTAATAGTGTGGTGGCTGATGTTCAAGAATTGCCTGCTTCAGTGCACAGTTTGTACTGGAAAGCACCGCCATCTTACCTGGGAGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015056:ENSGALT00000024287:34
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=PD(51.0=53.2)
A:
NA
C2:
PF0005213=Laminin_B=PU(8.0=20.0)
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:
GAATGTTGAAGGTGCAGAATGTGA
R:
TCTCTCCCAGGTAAGATGGCG
Band lengths:
302-794
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]