HsaINT0117559 @ hg38
Intron Retention
Gene
ENSG00000122136 | OBP2A
Description
odorant binding protein 2A [Source:HGNC Symbol;Acc:HGNC:23380]
Coordinates
chr9:135547871-135548809:+
Coord C1 exon
chr9:135547871-135547981
Coord A exon
chr9:135547982-135548642
Coord C2 exon
chr9:135548643-135548809
Length
661 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
CCGTGGTCGTCTCCTTTTAGCAT
3' ss Score
8.18
Exon sequences
Seq C1 exon
ATGGGGGCAGGAAGCTCATATACCTGCAGGAGCTGCCCGGGACGGACGACTACGTCTTTTACTGCAAAGACCAGCGCCGTGGGGGCCTGCGCTACATGGGAAAGCTTGTGG
Seq A exon
GTGAGGGGCCCGCTGGGGCCTGCATGTCCTGCCCCATGGTCTCTGCCTCCAGAAGCCAGTGGAACCACCATCATCACGCCCTGGCACGGGGGGAAAAGGAAGCCCCCTGCGCCGGCCTTCGTGTGCTAGGCACCAAGCGCTGCCCTGGATGGCTGGTCCAAGTTCCTGAAGTGGGAGTGGGGTGGGCCAGGCAGGGACAGACACGGCCCTCGGTGACATGAACCTGCCAAGGGCCGCTTGTGGGGTCTCAGGTGTAGGGGCCTCACCTTAAGGGGGAGGTAGCATCTTAACAGAGCTCTTCATGGGGCAGGGACTCTCCAGGGCGGCAGGGCAGCCAGTGCCTCTGGGACACAAGGTCCCTCCAGGTGAGGGTTATGACCCTGCAGAGTGGCTTTGGGAGCTGCCCAGGTCCCCCTGGGGTTGCTGAGTGGCTTGGACCCTGCCACTGTCCCCTTTCCTGGGGACCTCTCACCTGGGCGGTGGCCGTCTCCTCTGTCCCCAGTCCCACCCCTGAGCTCTTGTCCATTCTCAGGCCTCCTCTCCCCCTTGCCTGGTGCTGGACAGTTGCCATCTCTTCTGTCCCCAGCCCCACCCCTGAGCTCTGATCCACTCTCGGGCCTCTCCCCCGTCCTGATGCTGGGCCGTGGTCGTCTCCTTTTAG
Seq C2 exon
CATCTGCTCCCTGCAGGGCCGTGCCGCTGTCCCCACCTTGGCTCACCTGGCCACCTCACCTGCAGGTAGGAATCCTAATACCAACCTGGAGGCCCTGGAAGAATTTAAGAAATTGGTGCAGCACAAGGGACTCTCGGAGGAGGACATTTTCATGCCCCTGCAGACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000122136:ENST00000340780:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.096
Domain overlap (PFAM):
C1:
PF0006118=Lipocalin=FE(34.9=100)
A:
NA
C2:
PF0006118=Lipocalin=WD(100=89.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
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:
GGCAGGAAGCTCATATACCTGC
R:
GCAGGGGCATGAAAATGTCCT
Band lengths:
267-928
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