GgaINT0011799 @ galGal4
Intron Retention
Gene
ENSGALG00000005321 | LAMA5
Description
laminin, alpha 5 [Source:HGNC Symbol;Acc:HGNC:6485]
Coordinates
chr20:8191160-8191772:-
Coord C1 exon
chr20:8191592-8191772
Coord A exon
chr20:8191304-8191591
Coord C2 exon
chr20:8191160-8191303
Length
288 bp
Sequences
Splice sites
5' ss Seq
GAAGTGAGT
5' ss Score
7.97
3' ss Seq
CTTGTTATTGAACCTGGCAGAGT
3' ss Score
3.41
Exon sequences
Seq C1 exon
GAGGGGTACTACGGCTTCGAGGGATGCTCTGGCTGCAGGAGGTGTGACTGTGATGTCGGTGCCATGGGGAGCAGCTGTCACGCACAGACAGGCCAATGCCACTGCCTGCCCGGCGTCAGCGGCTCGCGCTGCCAGCAGTGTGCCCCAGGCTACTGGGGCTTCAGCGAGAGGGGCTGCAGAA
Seq A exon
GTGAGTCCTGCTTCCCAGCTGTTGGGTCCCTCACGTGGAGGGGTGGGACATGGTTTTGGTGGCACACACACTTGTCAAATTGCCAGAGAAGGAAAACAACCAACCGTTGTTTGTTTGGAGTCCTGTGCGTGTTGCTGGTTTGCACAGAGAAACCCCCAGCAGTGCATGCATGTACACGGGCAGAGATGCAATTGCACAGCTGGAGTGAAGCCACCTATTCCCCTCCCTTCGGTGTGGCAAGAGCACAAAATGATGACATGGGTGTTTCCTTGTTATTGAACCTGGCAG
Seq C2 exon
AGTGTGAGTGCAGAGGGGGCTCTTGCGACCCACGCACTGGGGAGTGCACCTGCTCCAACGGGCTGACGGGGAAGCAATGCGACGTCTGCATGCACAACTACGAGATCCCTGTGGCAAACGGCCCAGACAGCATGAGGTGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005321:ENSGALT00000008535:43
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PD(24.4=18.0),PF0005319=Laminin_EGF=PU(92.0=75.4)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(6.0=6.1)
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:
GGTACTACGGCTTCGAGGGAT
R:
TGCCACAGGGATCTCGTAGTT
Band lengths:
293-581
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]