HsaINT0117559 @ hg19
Intron Retention
Gene
ENSG00000122136 | OBP2A
Description
odorant binding protein 2A [Source:HGNC Symbol;Acc:23380]
Coordinates
chr9:138439717-138440655:+
Coord C1 exon
chr9:138439717-138439827
Coord A exon
chr9:138439828-138440553
Coord C2 exon
chr9:138440554-138440655
Length
726 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
CCTGGCCACCTCACCTGCAGGTA
3' ss Score
9.91
Exon sequences
Seq C1 exon
ATGGGGGCAGGAAGCTCATATACCTGCAGGAGCTGCCCGGGACGGACGACTACGTCTTTTACTGCAAAGACCAGCGCCGTGGGGGCCTGCGCTACATGGGAAAGCTTGTGG
Seq A exon
GTGAGGGGCCCGCTGGGGCCTGCATGTCCTGCCCCATGGTCTCTGCCTCCAGAAGCCAGTGGAACCACCATCATCACGCCCTGGCACGGGGGGAAAAGGAAGCCCCCTGCGCCGGCCTTCGTGTGCTAGGCACCAAGCGCTGCCCTGGATGGCTGGTCCAAGTTCCTGAAGTGGGAGTGGGGTGGGCCAGGCAGGGACAGACACGGCCCTCGGTGACATGAACCTGCCAAGGGCCGCTTGTGGGGTCTCAGGTGTAGGGGCCTCACCTTAAGGGGGAGGTAGCATCTTAACAGAGCTCTTCATGGGGCAGGGACTCTCCAGGGCGGCAGGGCAGCCAGTGCCTCTGGGACACAAGGTCCCTCCAGGTGAGGGTTATGACCCTGCAGAGTGGCTTTGGGAGCTGCCCAGGTCCCCCTGGGGTTGCTGAGTGGCTTGGACCCTGCCACTGTCCCCTTTCCTGGGGACCTCTCACCTGGGCGGTGGCCGTCTCCTCTGTCCCCAGTCCCACCCCTGAGCTCTTGTCCATTCTCAGGCCTCCTCTCCCCCTTGCCTGGTGCTGGACAGTTGCCATCTCTTCTGTCCCCAGCCCCACCCCTGAGCTCTGATCCACTCTCGGGCCTCTCCCCCGTCCTGATGCTGGGCCGTGGTCGTCTCCTTTTAGCATCTGCTCCCTGCAGGGCCGTGCCGCTGTCCCCACCTTGGCTCACCTGGCCACCTCACCTGCAG
Seq C2 exon
GTAGGAATCCTAATACCAACCTGGAGGCCCTGGAAGAATTTAAGAAATTGGTGCAGCACAAGGGACTCTCGGAGGAGGACATTTTCATGCCCCTGCAGACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000122136-OBP2A:NM_014582:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.009 A=NA C2=0.087
Domain overlap (PFAM):
C1:
PF0006118=Lipocalin=FE(34.9=100)
A:
NA
C2:
PF0006118=Lipocalin=FE(24.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
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:
GGCAGGAAGCTCATATACCTGC
R:
GCAGGGGCATGAAAATGTCCT
Band lengths:
202-928
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)