GgaINT0098641 @ galGal3
Intron Retention
Gene
ENSGALG00000015056 | LAMA3
Description
NA
Coordinates
chr2:106330575-106330935:+
Coord C1 exon
chr2:106330575-106330671
Coord A exon
chr2:106330672-106330783
Coord C2 exon
chr2:106330784-106330935
Length
112 bp
Sequences
Splice sites
5' ss Seq
CAGAGAAGT
5' ss Score
-4.97
3' ss Seq
TTGTTTTTTGTTTTGTATAAGCT
3' ss Score
0.43
Exon sequences
Seq C1 exon
GATTACATGGTGCTGTTACCTAGAGATTATTATGAAGCATCCATCTTGCAGATCCAAGTTACAGAGCCTTGCACCTATTCAGGACATGTTTCAACAG
Seq A exon
AGAAGTCAGTATATATGCTGCAAAATAAACCATTGCATTGGATTATATTGTTATTATCCCGCTGCAACTGAAAGCAATAATAATGATGTCTTTTGTTTTTTGTTTTGTATAA
Seq C2 exon
GCTGCTTGCTCTATCAGCATTTGCCATTGGGCAAATTTTCCTGTGTCCTTGCTTCAGAGGCAGTGTATTTCAGGCACGGTGTAAAACACGGAATACCTGTCCGACAGCCATCTCCTGGTCAACCAGTGATGTCACATATCAGTGGAAGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015056:ENSGALT00000024287:22
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=0.020
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATGGTGCTGTTACCTAGAGA
R:
TCTTCCACTGATATGTGACATCACTG
Band lengths:
242-354
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]