GgaINT0011789 @ galGal3
Intron Retention
Gene
ENSGALG00000005321 | LAMA5
Description
NA
Coordinates
chr20:7827789-7828462:-
Coord C1 exon
chr20:7828322-7828462
Coord A exon
chr20:7827951-7828321
Coord C2 exon
chr20:7827789-7827950
Length
371 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
TGCTTGATCTTCCCCCGCAGTTC
3' ss Score
10.16
Exon sequences
Seq C1 exon
GAAAATGTGGAGGGTCCGAGGTGTGACCAGTGCCGCCTGGGGACGTTTTCTTTGGATGCCAGCAACCCCAAGGGGTGCACCAAGTGTTTCTGCTTTGGTGCCACCAATCGCTGCCGCAGTGCTGTGAAGTACCGAGCTGAG
Seq A exon
GTGAGGGATCAGCAGAGCGGCTGTGCTCTTTTCTTGGGTCTTCATTGTGCACTAGTCTTACCCTGCTGGAAGATACAGTGTGAAGAGTGTTATCTTTGTCCTACTATGCCCCTCTCCCATTTTCAGCCCTTTTCCTGGTCTCTGGAGTCTCAGAGGGTAGAAAGTCATGGATGGCATTTGGGGATTATGCCAGGCAAGGGTGGTGCTCAGTTTTCCAGTGGCTTCATCAGGATGTGTGTGAGGCTGTGACCCTGTTGGCATCTTTTCAGCCGCGCTGAGAATTGCTCTTCTAAGCATCAGCATCCAAATGCCTTCTGTAGCTCCTCCAGGGCACAAAGGGAGAAACACGTATGCTTGATCTTCCCCCGCAG
Seq C2 exon
TTCATCGACATGAATGGCTGGCTCTTGATGAGCAGTGACCGCCAGGAGGTGCCAACAGCCCTGAGCCTGCGGGAGCAGCTGCTCCGTGCTGATCTCAGGAACCTCCTGGATGCCTATCAGGAGCTCTACTGGGTTGCACCTAGCTCCTACCTTGGGGACCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005321:ENSGALT00000008535:38
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=20.4)
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:
GAAAATGTGGAGGGTCCGAGG
R:
CGGTCCCCAAGGTAGGAGCTA
Band lengths:
302-673
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]