DreINT0108373 @ danRer10
Intron Retention
Gene
ENSDARG00000039174 | olfm3b
Description
olfactomedin 3b [Source:ZFIN;Acc:ZDB-GENE-070912-606]
Coordinates
chr2:15679394-15680078:-
Coord C1 exon
chr2:15679923-15680078
Coord A exon
chr2:15679614-15679922
Coord C2 exon
chr2:15679394-15679613
Length
309 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGC
5' ss Score
8.07
3' ss Seq
TCGCTTGTCTGGTTTTGCAGGAG
3' ss Score
8.07
Exon sequences
Seq C1 exon
ATTCAGAACATGTCGCAGTCAATCGAAGTGCTGAACCTGAGGACCCAGAGGGATTTCCAGTATGTCATGAAAATGGAGAGCCAGATGAAAGGACTCCGATCAAAGTTCAGACAAATCGAGTCCAACCGAAGAACATTATTGACTAAAAACTTTCAG
Seq A exon
GTGGGCTACCATTAAAGTCATGCCTCGGAGAAAATCAATGGCTCTTTCTCGTATGAACAGAGCGGTCTGAAAAAGCCACACTTGTCATTACTCTCCAAGAATGAATCAAATTCCACTTCATGAATAGCTTTTTTACAATCATTTGAAAAGGCAGTCCAACATTCCTGGAAATCCTGTAAACCCCTAAAGGTCATGCTTTATTTGTGTTATATTCAGAACATCTTGATGTTACCAGTGAAGCATCTGTTTCTACTAATGAAAGCAAATCTCTTCTTGTGACTTAATTTAATCGCTTGTCTGGTTTTGCAG
Seq C2 exon
GAGCTGAAGGGGAAGATGAATGAGTTGCAGCCGCTGATTCCGGTTTTGGAGCAGTATAAAACTGATGCCTCACTCATTTCCCAGTTCAAGGAGGAGCTCAGGAATCTCTCTGTGGTGCTGATGGCCATTCAGGAGGAGATCGGAGCGTATGATTATGAGGAGCTCCAGCAAAGGGTCCTTGGCTTGGAGGGAAGACTGAGGAACTGCATGAACAAACTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000039174:ENSDART00000057238:2
Average complexity
IR
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(51.5=100),PF097894=DUF2353=FE(34.2=100),PF115933=Med3=FE(35.9=100)
A:
NA
C2:
PF123083=Noelin-1=PD(1.0=1.4),PF097894=DUF2353=FE(48.0=100),PF115933=Med3=FE(50.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCAGTCAATCGAAGTGCTGA
R:
TCAGTCTTCCCTCCAAGCCAA
Band lengths:
342-651
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]