HsaINT0091015 @ hg38
Intron Retention
Gene
ENSG00000184925 | LCN12
Description
lipocalin 12 [Source:HGNC Symbol;Acc:HGNC:28733]
Coordinates
chr9:136953700-136953964:+
Coord C1 exon
chr9:136953700-136953779
Coord A exon
chr9:136953780-136953923
Coord C2 exon
chr9:136953924-136953964
Length
144 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGC
5' ss Score
8.84
3' ss Seq
GCCCTGATGCTGTCCCGCAGACA
3' ss Score
9.78
Exon sequences
Seq C1 exon
AGGCCAGCACTGTGACACATGGTCTTATGTGCTGATACCGGCAGCCCAGCCTGGGCAGTTCACTGTGGACCACGGTGTGG
Seq A exon
GTAAGCCAGTCACAGGAGGGAGGGACGGGGTGCTGGCCCACAGGGATGTGACGTCTGTGCCGCCTCAGAGCCCGGGGCGGACAGAGAGGAGACCCGGGTGGTGGACAGCGACTACACCCAGTTCGCCCTGATGCTGTCCCGCAG
Seq C2 exon
ACACACGAGCAGGCTGGCCGTCCTCAGGATCAGCCTGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000184925:ENST00000491316:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.152 A=NA C2=0.123
Domain overlap (PFAM):
C1:
PF0006118=Lipocalin=FE(18.6=100)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCAGCACTGTGACACATGG
R:
AGGCTGATCCTGAGGACGG
Band lengths:
114-258
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development