GgaINT0011785 @ galGal4
Intron Retention
Gene
ENSGALG00000005321 | LAMA5
Description
laminin, alpha 5 [Source:HGNC Symbol;Acc:HGNC:6485]
Coordinates
chr20:8197531-8198112:-
Coord C1 exon
chr20:8197997-8198112
Coord A exon
chr20:8197743-8197996
Coord C2 exon
chr20:8197531-8197742
Length
254 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGG
5' ss Score
5.85
3' ss Seq
CCTCCTGCCTTCCTCTGCAGTCC
3' ss Score
10.97
Exon sequences
Seq C1 exon
GATTACATCCTCGTGGTGCCAGAGGACAGCTACAGCTCTCAGTACCTGCAGGAGGAGCCCCTGGACAAGTCCTACGACTTCATCAGCAGCTGTGGCATTAACAGCTTCTACATCAA
Seq A exon
GTGAGGCGCTTGGCTTTGGATGGCTGCTGTGCTGTATGGGGGCTGCACGCTCCTCGGGGAGCAAAAACATGTTCCCTTCACAGGGACTGTGGGGAGGTCTCTGTTTAATACTTTCCTTATGTAGTGACCAAACCTGAGGGTGTTTGGGAATGCTCTCCATCCCACCAATTTAGCACACGTTGATATAAGAGATCCTGCTGGATTTTGGGGTGGTGGGGAGGCTGTGTGACGATTCCTCCTGCCTTCCTCTGCAG
Seq C2 exon
TCCCAGCACATCGTCGAGGTTTTGCCGTGACTCCGCCATCTCGCTGTCCCTCTTCTACAACAATGGGGCACAGCCCTGCCAGTGCCATGAGGCGGGGGCACGGGGCAGCCAGTGCGAGCCCTTTGGTGGGCAGTGTCCCTGCAAGTCCAATGTCATCGGGCGAGAGTGCTCCCGCTGCGCCACCGGCTACTGGGGCTTCCCCAACTGCAGGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005321:ENSGALT00000008535:29
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:
PF0005319=Laminin_EGF=PU(91.8=62.5)
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:
AGCTCTCAGTACCTGCAGGAG
R:
CTGCAGTTGGGGAAGCCC
Band lengths:
293-547
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]