RnoINT0104838 @ rn6
Intron Retention
Gene
ENSRNOG00000042407 | Obp2a
Description
odorant binding protein 2A [Source:RGD Symbol;Acc:1588212]
Coordinates
chr3:2912757-2913362:+
Coord C1 exon
chr3:2912757-2912783
Coord A exon
chr3:2912784-2913197
Coord C2 exon
chr3:2913198-2913362
Length
414 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGT
5' ss Score
10.45
3' ss Seq
TCTCTCTTTCCCTACCACAGCAG
3' ss Score
7.8
Exon sequences
Seq C1 exon
ATGAGTGTGTTAATGAAAGTGACTAGG
Seq A exon
GTAAGTCCCCCCTCTCCCAACCCCATCGCTCATAGGACTGTGGAAAAGTCTAGAATGCTGGGCTCTGGGCTCTGGATGAGGGTCCCCATCCCATCCACATAGACAAGTGTGGTCACTCAGGATGTGGCCCTTTGTATAGTTTCCATGATGTATAGGAATTCTGTTCTTCTCATGATCTCTCTGGTCCGGTCTCTACCTGTCCTGGTCCTTTTCCTTCTCCCCAAGGACGCTGAGATCTGGCTTCTTATGGAAGTGGTGCAGGGCCCCAGCTCCCAGCAGGGACCACACAGAGACGTGGGGAAAGAGGACCTCCGACCCATATCTGCCCTGTGCCATCCCTGTCCATGCCTCCCCTGACTGCTGCCCCTGAAAAAAACTGGGAGGAGGGTGCTTATCTCTCTTTCCCTACCACAG
Seq C2 exon
CAGCTACCCAGGTTTGCAACAGCTGAGCCAGCCTTGCTTTCACACCAGGCTGGGACGGACATCCCGGCACCACACCTCTCCTGGACCAAGCTTCCCACTGCCTCGCCCCAACCCCCATCTCAGTACCTGCTCCCCTCCCCAACTCCAAATAAAGCTTTCCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000042407:ENSRNOT00000064745:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.125 A=NA C2=NA
Domain overlap (PFAM):
C1:
PF0006118=Lipocalin=PD(0.1=0.0)
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
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:
TGAGTGTGTTAATGAAAGTGACTAGG
R:
TGCTGGAAAGCTTTATTTGGAGT
Band lengths:
190-604
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]