GgaINT0011771 @ galGal3
Intron Retention
Gene
ENSGALG00000005321 | LAMA5
Description
NA
Coordinates
chr20:7841513-7842073:-
Coord C1 exon
chr20:7842021-7842073
Coord A exon
chr20:7841619-7842020
Coord C2 exon
chr20:7841513-7841618
Length
402 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
CCATCCCTGCTCTCTCCTAGGGC
3' ss Score
9.12
Exon sequences
Seq C1 exon
GCTGCAAGTGTGAGACCAAGGGCACCATCAGTGGAATTGCAGAGTGTCAGCAG
Seq A exon
GTGGGTTTGCTCCTCTCTGCCTCCAGGCACCTCTGAATCTGCGCTGTGTTGGGCGTGTTTCAGCTCTGTCTCTTCCAGCAGCTGCTGGAGACTCCCATCCTGACGCTGAACTCTCAAAGGTCACACCACAATCTGTGCTTGCATGACAACACAGGATTAAGACCTGTCATAAATTAGGCACCTAAATATTTCTGGGTCTGGCCCAGGATGCCTGGATTTTTGTTTGCCTGCATTTTTGGGCAGTTGCACTTATCTGGCCCTTATCTGGCCCACCCACACACAGGAAGCATGAAACTCACAATGTTCCTCCAGCACCTCTGACTAGAACCCACGTAGCTGAGTAATGGCTCAGCCATGAGGAGCAATGAGAGGGAATCAGCTCCCATCCCTGCTCTCTCCTAG
Seq C2 exon
GGCAATGGGCAGTGCTTCTGCAAACCGAACACCTGTGGACAGTTCTGCTCAGCATGCAAAGATGGTTACTTCAGTATGGAGAACACAAATTACTTTGGCTGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005321:ENSGALT00000008535:20
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=PU(31.4=88.9)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(64.7=91.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]