GgaINT0011810 @ galGal4
Intron Retention
Gene
ENSGALG00000005321 | LAMA5
Description
laminin, alpha 5 [Source:HGNC Symbol;Acc:HGNC:6485]
Coordinates
chr20:8187111-8187511:-
Coord C1 exon
chr20:8187398-8187511
Coord A exon
chr20:8187291-8187397
Coord C2 exon
chr20:8187111-8187290
Length
107 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTGT
5' ss Score
7.81
3' ss Seq
TTTTCCTTCTATCTTTCCAGAGG
3' ss Score
11.4
Exon sequences
Seq C1 exon
CTATTAAAGGCACTCTGCAGACAGCAAAGAACAAGCTGGCTGACCTCCGCAGGAAGAAAGAGCAGCTCTTGAGCCAGCTGCAGTCTGTGCAGGATATGCTGGGCAGGGACCAAG
Seq A exon
GTTTGTCCTGGGTGCTCTCTGCCCCCATCCTCACATCCAGCTTGCAACCCAAGGCTGCTTCCTCCCCTCTCCTGACCATCTCGGGGATTTTCCTTCTATCTTTCCAG
Seq C2 exon
AGGACACCAAGGAGACAATCCAGAATGCCAAAGCAGCTGCGACAGAGGCCAACCAGACAGCTGCAAGAGTGGAAGAGACCCTGAGCACCATGAAGAAGAACCTGGATGAGTGGAAAGACAAGTATGGAGGCCTTCGAAATGAAGACCTGAACCAGGCAGTCCAAGACGCCAGGAAATCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005321:ENSGALT00000008535:54
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.487 A=NA C2=0.754
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF060097=Laminin_II=PU(39.5=83.6)
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:
GCAAAGAACAAGCTGGCTGAC
R:
GTCTTGGACTGCCTGGTTCAG
Band lengths:
258-365
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]