GgaINT1016815 @ galGal4
Intron Retention
Gene
ENSGALG00000028582 | LMO2
Description
Gallus gallus LIM domain only 2 (rhombotin-like 1) (LMO2), mRNA. [Source:RefSeq mRNA;Acc:NM_204271]
Coordinates
chr5:17717401-17717820:-
Coord C1 exon
chr5:17717659-17717820
Coord A exon
chr5:17717579-17717658
Coord C2 exon
chr5:17717401-17717578
Length
80 bp
Sequences
Splice sites
5' ss Seq
GAGGTTAGA
5' ss Score
4.15
3' ss Seq
GTCTCTCTTTGGTGTTGCAGGAG
3' ss Score
9.06
Exon sequences
Seq C1 exon
GCCGGAGAGCGGCGGGCAGCGGCCGGGCGTGCAGCGGTGGCGGCGGGCAGGCAGCGGTGGCCGCGGTAGTCGCGGTAGTCGCCTCCCGAACACCCGCAGAGCCGCAGCCGGAGGAGCGGCCCCGCCGCCCGGCGCGCGGGAGGAGCGCGGCGAGGATGGGAG
Seq A exon
GTTAGAGCCCGCGGGCAGCCCCGCCGCCGGAGCCCGGCAGCCGCCCCAGCCCGCGTTTGTGTCTCTCTTTGGTGTTGCAG
Seq C2 exon
GAGGAAATCCTGTGAATGTCATTGGGGGGCGGAGGGGGAGCGCGGCTGGTGACAAGGCGTCGAGAGCGGACGGCCTCTGCGGGGGCAGCGGGGGCAGATCGCACCACAGGCACGCTACAAAGGAGCCATCCCTGCCAATGTCATCGGCCATCGAGAGGAAGAGCCTCGATCCTTCCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000028582:ENSGALT00000043955:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.683
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGTAGTCGCGGTAGTCG
R:
CGCTCTCGACGCCTTGTC
Band lengths:
167-247
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]