GgaINT0011828 @ galGal4
Intron Retention
Gene
ENSGALG00000005321 | LAMA5
Description
laminin, alpha 5 [Source:HGNC Symbol;Acc:HGNC:6485]
Coordinates
chr20:8181037-8181436:-
Coord C1 exon
chr20:8181277-8181436
Coord A exon
chr20:8181171-8181276
Coord C2 exon
chr20:8181037-8181170
Length
106 bp
Sequences
Splice sites
5' ss Seq
TAGGTAACC
5' ss Score
6.66
3' ss Seq
CAGTGGCACTGCATTTCCAGCTG
3' ss Score
3.71
Exon sequences
Seq C1 exon
GGCACGTCGGTCTCCAGCTTTGACGGCTGCCTGAGGAACCCGCAGCTGGACGGGAAGCCCCTGGGTACCCCCTCACACACCTTTGGGGTAACGCCGTGCTATGAGGGTGCTCTGGAGAGTGGAGTTTTCTTCGCAGCAGATGGCGGGTCCATCACCCTAG
Seq A exon
GTAACCCACAGCAGCCTGGGCTGGTTCCCATGGTCCTGGGACTGGAAAGGATGTGTCTGGTGGGAGGTCCCTTGTCCCCTTCTCACCAGTGGCACTGCATTTCCAG
Seq C2 exon
CTGATGCACTGGCAACTGAGCAGGACTTGGAGGTGACACTGGAAGTCCGTCCCCACAGTGCCTCTGGGCTCATCTTCCACATCGGGACAAGGAGGAGTCACCACAGCCTTGTGCTGTACATGGAGGAGACAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005321:ENSGALT00000008535:72
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.037 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0221019=Laminin_G_2=PD(14.3=33.3)
A:
NA
C2:
PF0221019=Laminin_G_2=PU(22.5=64.4)
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:
GTCGGTCTCCAGCTTTGACG
R:
TCCTTGTCCCGATGTGGAAGA
Band lengths:
248-354
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]