HsaINT0118198 @ hg19
Intron Retention
Gene
ENSG00000173391 | OLR1
Description
oxidized low density lipoprotein (lectin-like) receptor 1 [Source:HGNC Symbol;Acc:8133]
Coordinates
chr12:10312946-10313524:-
Coord C1 exon
chr12:10313385-10313524
Coord A exon
chr12:10313062-10313384
Coord C2 exon
chr12:10312946-10313061
Length
323 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
AGAAACATTACTCCCCACAGGAC
3' ss Score
5.77
Exon sequences
Seq C1 exon
CTCCTTGTCCGCAAGACTGGATCTGGCATGGAGAAAACTGTTACCTATTTTCCTCGGGCTCATTTAACTGGGAAAAGAGCCAAGAGAAGTGCTTGTCTTTGGATGCCAAGTTGCTGAAAATTAATAGCACAGCTGATCTG
Seq A exon
GTGAGTGTTCATGGATATTTGTTGGGGTGGAGTATTGGTTGATAGGGAAATTAATCTGGTTTAAACTGTCACTGGAGGAATTCTTGTTTGAGAGCCAAAATGTCTGTTTTTTTAGCTTAGTCTGATCACCAATTTTGTGTATGACCTTGGACGGACAGGCTCTGTAGTATCTCTAGCCTTCAGTAAGTGTTTCCGTAAAACAGTCAAGGGGATGTCAAAGATACCTTTTGGTTCTTTAGTTTTGTGGATCCAACACTAACTGACTTTCAGATTCTAAAACCACCATGTGGATTCCACAAACTCAGAAACATTACTCCCCACAG
Seq C2 exon
GACTTCATCCAGCAAGCAATTTCCTATTCCAGTTTTCCATTCTGGATGGGGCTGTCTCGGAGGAACCCCAGCTACCCATGGCTCTGGGAGGACGGTTCTCCTTTGATGCCCCACTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000173391-OLR1:NM_002543:4
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF083915=Ly49=PD(12.6=34.0),PF043759=HemX=PD(8.6=27.7),PF130941=CENP-Q=PD(30.9=80.9),PF0149614=V_ATPase_I=PD(31.3=89.4),PF054737=Herpes_UL45=FE(79.3=100)
A:
NA
C2:
PF083915=Ly49=PD(2.6=7.7),PF039389=OmpH=PD(0.1=0.0),PF041117=APG6=PD(6.4=17.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
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:
TTGTCCGCAAGACTGGATCTG
R:
GTGGGGCATCAAAGGAGAACC
Band lengths:
250-573
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)