HsaINT0118162 @ hg19
Intron Retention
Gene
ENSG00000105088 | OLFM2
Description
olfactomedin 2 [Source:HGNC Symbol;Acc:17189]
Coordinates
chr19:9967939-9968537:-
Coord C1 exon
chr19:9968391-9968537
Coord A exon
chr19:9968159-9968390
Coord C2 exon
chr19:9967939-9968158
Length
232 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
GGTTCCATCTTGATGCACAGGAG
3' ss Score
3.38
Exon sequences
Seq C1 exon
GTCCAGAACGTCTCCCAGTCCATGGAGGTCCTTGAGTTGCGGACGTATCGCGACCTCCAGTATGTACGCGGCATGGAGACCCTCATGCGGAGCCTGGATGCGCGGCTCCGGGCAGCTGATGGGTCCCTCTCGGCCAAGAGCTTCCAG
Seq A exon
GTGGGTCCTCCTGTGTCCAGACCAGAGGTCAAACAAATGACTGGGATTTGGTATCCATTAGTTCCTACAATGGAGTCATGTCTGGGAAGAATCTAGGGTCCAATATGAGCCACATGTCAAGGGCCAGGTGTGCATCAAAGACAAAGGGTGAAGTTATGAGTCAGAGGTTGGAGTCATGTCTGGGTCAAAGGCCAGGGGTCAGGCTTGGCCATGGTTCCATCTTGATGCACAG
Seq C2 exon
GAGCTGAAGGACAGGATGACGGAACTGTTGCCCCTGAGCTCGGTCCTGGAGCAGTACAAGGCAGACACGCGGACCATTGTACGCTTGCGGGAGGAGGTGAGGAATCTCTCCGGCAGTCTGGCGGCCATTCAGGAGGAGATGGGTGCCTACGGGTATGAGGACCTGCAGCAACGGGTGATGGCCCTGGAGGCCCGGCTCCACGCCTGCGCCCAGAAGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000105088-OLFM2:NM_058164:3
Average complexity
IR-S
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:
PF123083=Noelin-1=FE(49.0=100),PF148171=HAUS5=FE(30.0=100)
A:
NA
C2:
PF123083=Noelin-1=PD(0.1=0.0),PF148171=HAUS5=FE(45.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCATGGAGGTCCTTGAGTTGC
R:
GTTGCTGCAGGTCCTCATACC
Band lengths:
300-532
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)