GgaINT0098672 @ galGal3
Intron Retention
Gene
ENSGALG00000015056 | LAMA3
Description
NA
Coordinates
chr2:106372129-106372508:+
Coord C1 exon
chr2:106372129-106372245
Coord A exon
chr2:106372246-106372328
Coord C2 exon
chr2:106372329-106372508
Length
83 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGT
5' ss Score
7.7
3' ss Seq
TGCATTTTTCTGCCTTTCAGATG
3' ss Score
11.17
Exon sequences
Seq C1 exon
CTATTGGTCCAACCCTCGAAGACATAAAGCAAAGACTTGGAGCCACTGATGGAAAGAAGAACACACTACAAATTGATCTTGTTACTCTTCAAAATAATCTCAATGGGATAAACAGAG
Seq A exon
GTCAGTTATCTGCTCATCACTTCTCTTTTGCCTCTTCCACTAGTTACTCTAAGAATCTACATATGCATTTTTCTGCCTTTCAG
Seq C2 exon
ATGACATTGACGACATCATTACTAGTGCAAAGAACATGGTAAAAAGTGCCAAGGATGTGACAACTAATGTACTGGATGAACTGCTCCCAATTCAAGAAGATGTGGAAAAAATGAAGGGTACCTATGGAAGCACACAGAGTGCTGGCTTCAATAAAGCATTGACAGAAGCCAACAATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015056:ENSGALT00000024287:53
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.175 A=NA C2=0.213
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTCCAACCCTCGAAGACAT
R:
AGTTGTCACATCCTTGGCACT
Band lengths:
178-261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]