HsaINT0091015 @ hg19
Intron Retention
Gene
ENSG00000184925 | LCN12
Description
lipocalin 12 [Source:HGNC Symbol;Acc:28733]
Coordinates
chr9:139848152-139848416:+
Coord C1 exon
chr9:139848152-139848231
Coord A exon
chr9:139848232-139848299
Coord C2 exon
chr9:139848300-139848416
Length
68 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGC
5' ss Score
8.84
3' ss Seq
TGACGTCTGTGCCGCCTCAGAGC
3' ss Score
6.92
Exon sequences
Seq C1 exon
AGGCCAGCACTGTGACACATGGTCTTATGTGCTGATACCGGCAGCCCAGCCTGGGCAGTTCACTGTGGACCACGGTGTGG
Seq A exon
GTAAGCCAGTCACAGGAGGGAGGGACGGGGTGCTGGCCCACAGGGATGTGACGTCTGTGCCGCCTCAG
Seq C2 exon
AGCCCGGGGCGGACAGAGAGGAGACCCGGGTGGTGGACAGCGACTACACCCAGTTCGCCCTGATGCTGTCCCGCAGACACACGAGCAGGCTGGCCGTCCTCAGGATCAGCCTGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000184925-LCN12:NM_178536:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.202 A=NA C2=0.146
Domain overlap (PFAM):
C1:
PF0006118=Lipocalin=FE(55.1=100)
A:
NA
C2:
PF0006118=Lipocalin=FE(26.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTCTTATGTGCTGATACCGGC
R:
CTGATCCTGAGGACGGCCAG
Band lengths:
169-237
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
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)