HsaINT0117563 @ hg19
Intron Retention
Gene
ENSG00000171102 | OBP2B
Description
odorant binding protein 2B [Source:HGNC Symbol;Acc:23381]
Coordinates
chr9:136081702-136082723:-
Coord C1 exon
chr9:136082613-136082723
Coord A exon
chr9:136081804-136082612
Coord C2 exon
chr9:136081702-136081803
Length
809 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
ATGGGGGCAGGAAGCTCATGTACCTGCAGGAGCTGCCCAGGAGGGACCACTACATCTTTTACTGCAAAGACCAGCACCATGGGGGCCTGCTCCACATGGGAAAGCTTGTGG
Seq A exon
GTGAGGGGCTTGCTGGGGTCTGCGTGTCCTGCCCCACGGTCTCTGCCTCTGGAAGCCGGTGGAACCAGCACCACCATGCCCTGGCATGGGGGAAAAGGAAGCCCCCTGTGCCGGCTTTCATGTGCCGGGCACCGCTGGGCAGCCGGTCCAAGTACCTGAAGTGGGAATGGGATGGGCCAGGCAGGGACAGACATGGCCCTCGGTGACATGAACCTGCCAAGGGCCACTTCTGGGGTCTCGGGTGTAGGAGGGTCACCTTAAGGGGGAGGGTCACCTTAAGCGTCCTAAGAGAGCTCTTCATGGGGCAGGGACCCTCCAGGGCAGGAGGGTGGCCGGTGCCTCTGGGAGACAAGGTCCCTCCAGGTGAGGGCTGTGACCCTGCAGGGTGGCATTGGGAGCTGCCCAGGTCCCCTGGGGTTGCCGAGTGGCTTGGAGAGTCCCCGCCACTGTCCCCCTTCCTGGGGACCTCTCATCTGGGCAGTGACTGTCTCCTCTGTCCCCAGTCCCACCCCTGAGCTCTCATCCATTCTCAAGTCTCCTCTCCTGCTTGTCCGGTGCTGGGCTATGGCCATCTCTTCTGTCCCCGGCCCCACCCCAGAGCTCTGGTCCACTCTTGGGTCTCTCCCCTTGTCCTGGTGCTGGGCAGTGGCCATCTCCTCTGTCCCCAGCCCCACCCCCGAGCTCTGATCCACTCTCAGGCCTCTCCCCCTGTCCTGGTGCTGGGCCGTGGTCGTCTCCTTTCGGCATCTGCTCCCTGCAGGGCCGTGCCGCTGTCCCCACGTCGGCTCACCTGGCCACCTCACCTGCAG
Seq C2 exon
GTAGGAATTCTGATACCAACCGGGAGGCCCTGGAAGAATTTAAGAAATTGGTGCAGCGCAAGGGACTCTCGGAGGAGGACATTTTCACGCCCCTGCAGACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000171102-OBP2B:NM_014581:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.465 A=NA C2=0.108
Domain overlap (PFAM):
C1:
PF0006118=Lipocalin=FE(26.6=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:
GGCAGGAAGCTCATGTACCTG
R:
GTCTGCAGGGGCGTGAAAAT
Band lengths:
206-1015
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)