GgaINT0011780 @ galGal4
Intron Retention
Gene
ENSGALG00000005321 | LAMA5
Description
laminin, alpha 5 [Source:HGNC Symbol;Acc:HGNC:6485]
Coordinates
chr20:8200295-8200979:-
Coord C1 exon
chr20:8200871-8200979
Coord A exon
chr20:8200393-8200870
Coord C2 exon
chr20:8200295-8200392
Length
478 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGG
5' ss Score
8.3
3' ss Seq
CTCCTTTCCATGCACGGCAGCAC
3' ss Score
4.79
Exon sequences
Seq C1 exon
TTTCCTTTGTCGAGGGGTTGCTGTGGATTCCCAGAGCAGATTGGCAACTTTTGAACTTACCTCGGAGGCCACGATTCGGTTCATCGCTGACCTGGCTGACTTCTTCCTG
Seq A exon
GTGAGGCTCCCTATGAGGGTTGCTGTTTGCAGGTTATGAGGAGGAGAGGTGGGAGAAGTGCCTGGCCGGCAGAAGGGCTTTCTGGCTCTGGTTTGGCTGGATGCTAGATCTCCATCCAGGTCATGTGCAGTCCAAGGTGAAGAGCGTGCTAAGTAGCATGTTTTGAAATAGATAGTTGGGTTTGGGAGAAGATGCTGACAGGAAGCTGCTCTTTGTGGAAGGAGCTCTGCAGCAACGTGACAGCGCTTCTTCCCACTTTACCTGGAGGCATTCGTGGTTGCTTAGATGGAGATAGAAGTGGAGCTCCTAAACACATTAGGGCTTGTACCAGGGAAGAAGGGGCAGGAAATAGGCATGACCTGTTATGTGTTAGCCAGTGTCTGATGAGAGGATGTTTGGTGCACTGATGGTGGACTCAGAAGCCACTGTAGGCTCCCAGACTCACTGTAACTGTATGTCTCCTTTCCATGCACGGCAG
Seq C2 exon
CACAAAGTGTACCTTGTTCCTGCTGAGCAGTTCACCATGGAGTTTGTTGAGCCGAAGGTGCATTGCATCAGTGTCCATGGCATGTTCTCATCCAATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005321:ENSGALT00000008535:24
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:
NO
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:
TTTCCTTTGTCGAGGGGTTGC
R:
TATTGGATGAGAACATGCCATGGA
Band lengths:
206-684
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]