HsaINT0118199 @ hg19
Intron Retention
Gene
ENSG00000173391 | OLR1
Description
oxidized low density lipoprotein (lectin-like) receptor 1 [Source:HGNC Symbol;Acc:8133]
Coordinates
chr12:10310899-10313061:-
Coord C1 exon
chr12:10312946-10313061
Coord A exon
chr12:10312621-10312945
Coord C2 exon
chr12:10310899-10312620
Length
325 bp
Sequences
Splice sites
5' ss Seq
CTTGTAAGT
5' ss Score
8
3' ss Seq
TTGTTTTTTCCTACCTGCAGATT
3' ss Score
12.45
Exon sequences
Seq C1 exon
GACTTCATCCAGCAAGCAATTTCCTATTCCAGTTTTCCATTCTGGATGGGGCTGTCTCGGAGGAACCCCAGCTACCCATGGCTCTGGGAGGACGGTTCTCCTTTGATGCCCCACTT
Seq A exon
GTAAGTTTCCCATTCTTTTTGATGCCTCTCTCGTCAGTTTCCTATTCTTTGCTGAACCTGCTAGTGAGGTCACTGCCTGCATCCCACCAATGTCCTCTTCTTGCCAGAGAGAAGCTTGGGGGAATTTCTCAAAGTCTCCTTCCTTACCTCTTTCACAAAAAGATTTACTCATTAACCATTCAGACATTTTCTTGAGTTTTCCTTCCCACATTTATTACTGATTGGAGGCTTTAAGACAAAAAGTTTCAAAAGCTAAGTTTCTGAAACAAGGTGGCAGTAAACCTAAGTTTTTTTGTTGGTTTGTTTTGTTTTTTCCTACCTGCAG
Seq C2 exon
ATTTAGAGTCCGAGGCGCTGTCTCCCAGACATACCCTTCAGGTACCTGTGCATATATACAACGAGGAGCTGTTTATGCGGAAAACTGCATTTTAGCTGCCTTCAGTATATGTCAGAAGAAGGCAAACCTAAGAGCACAGTGAATTTGAAGGCTCTGGAAGAAAAGAAAAAAGTCTTTGAGTTTTATTCTGGAATTTAAGCTATTCTTTGTCACTTGGGTGCCAAACATGAGAGCCCAGAAAACTGTCATTTAGCTGGCTGCAGAACTCCTTTGCAGAAACTGGGGTTCCAGGAGCCTGGCACCTTTATGTCAACATTTTTGATTCTAGCTACCTGTATTATTTCACCTAGCTTGTCCCAAGCTTCCCTGCCAGCCTGAAGTCCATTTTCCCCTTTTTATTTTAAAATTTGACTCCTCTTCAAGCTTGAAAACCCTCTGAACTCAGTCTTCTTTACCTCATTATCACCTTCCCCTCACACTCCTAAAATTGCATGAAAGACAGAACATGGAGAACTTGCTCAAGTGCAGGCAGAGAGCAAAAAGGGGAAATATGTCTGGGAAAAAGTGCACGTGAAGAAACAAAGAAGGACAGAGGCCATTCCGAAATCAAGAAACTCATGTTCTTAACTTTAAAAAAGGTATCAATCCTTGGTTTTTAAACTGTGGTCCATCTCCAGACTCTACCACTTACGGACAGACAGACAGACAGACACACACACACACACACACACACATTTTGGGACAAGTGGGGAGCCCAAGAAAGTAATTAGTAAGTGAGTGGTCTTTTCTGTAAGCTAATCCACAACCTGTTACCACTTCCTGAATCAGTTATTATTTCTTCATTTTTTTTTCTACCAGAGGACAGATTAATAGATTTAACCCTTCACAACAGTTCTTGTTAGAATCATGGGATGTGTGGCCCAGAGGTAAGAATAGAATTTCTTTCCCTAAAGAACATACCTTTTGTAGATGAACTCTTCTCAACTCTGTTTTGCTATGCTATAATTCCGAAACATACAAGACAAAAAAAATGAAGACACTCAATCTAGAACAAACTAAGCCAGGTATGCAAATATCGCTGAATAGAAACAGATGGAATTAGAAATATATCTTCTATTTTTAGGCTTCTATTTCCTTTCCACCCACTCTTCACAGGCTATTCTACTTTAAAGGAAGCCTTTTTATTTTGCTGCACACAATCTAGCAGGAATCTTTTTTTTTTTTTAAGAGCTGTGTCATCCTTATGTAGGCAAGAGATGTTTGCTTTTGTTAAAAGCTTTATTGAGATATAATTAACATAAAATAAACTGAACATATTTAAAGTGTACTATTTGATAAGTTTTCACACCTTGTGGAGAACATGCATACTACAATTAAGAGAGTGAACATATCCATCATCCCTCAAAGTGTCACAATGCTCCTCCTGATGACTCCTCCCCAGAAAACCACCAATCGGCTTTCATTTTGCATTTTGTAGTTTTATGTGAATGGAATCATATAGTATGTCTTTTTTTTTTGTCTGGCTTCTTTCACTTTGCATAATTATTTTGAGATTCATATGTCTCCATCTTGATGCTCGTATGAATTCATTCTTTTAAATGTTGAATATTCCCTTGTATGGATATACCACAATTCATTTACCCATTTACTTGTTGATGACATTTGGGTTGTTTTAGTTTTGGGATATTACAAATAAAGCTGCTGTGAACATTTGTGTACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000173391-OLR1:NM_002543:5
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF083915=Ly49=PD(2.6=7.7),PF039389=OmpH=PD(0.1=0.0),PF041117=APG6=PD(6.4=17.9)
A:
NA
C2:
PF0005916=Lectin_C=PD(36.8=81.2)
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:
CATTCTGGATGGGGCTGTCTC
R:
TCTGCAAAGGAGTTCTGCAGC
Band lengths:
356-681
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)