DreINT0108374 @ danRer10
Intron Retention
Gene
ENSDARG00000039174 | olfm3b
Description
olfactomedin 3b [Source:ZFIN;Acc:ZDB-GENE-070912-606]
Coordinates
chr2:15678603-15679613:-
Coord C1 exon
chr2:15679394-15679613
Coord A exon
chr2:15678710-15679393
Coord C2 exon
chr2:15678603-15678709
Length
684 bp
Sequences
Splice sites
5' ss Seq
TTAGTGAGT
5' ss Score
5.79
3' ss Seq
ATCATTCTCTGTTGTGTCAGCAT
3' ss Score
4.49
Exon sequences
Seq C1 exon
GAGCTGAAGGGGAAGATGAATGAGTTGCAGCCGCTGATTCCGGTTTTGGAGCAGTATAAAACTGATGCCTCACTCATTTCCCAGTTCAAGGAGGAGCTCAGGAATCTCTCTGTGGTGCTGATGGCCATTCAGGAGGAGATCGGAGCGTATGATTATGAGGAGCTCCAGCAAAGGGTCCTTGGCTTGGAGGGAAGACTGAGGAACTGCATGAACAAACTTA
Seq A exon
GTGAGTTTTAAACTTTCTAAACTCTTAGGCTAATCCTGCTCCTGGAAGGCCAGTGTCCGGCACATTATCAGTCCCATTAGGCTAGTCATTTCACTCTTTGTGATGCCTCTCAGGCATGCAAGTGTAGCTCCCATCTAGTTGAATGGAGTTTCTAGTTGAACATCAAATTCTCCAAAGCTGTTTTTCAAGTTTACCATTAAGCTTAATATTTGAAATGACCAATAAAAATAAAAATAAAAATTACTGTCTTCTAAATTTTGTTTCCTAAGCTAATGCGTGTTCACACTCAAAAAGAACACGACACCAACCACCTTTATGGTCAAATATCATCCTGTCTATCAAACCATGTGTTGTTTCACACAATATCATCCTCTGAAAAAATGCCAAGTCTCATTTTGAAAATCTTTTCCCAAAATGACAGCCACCTTATTGTTTATGGGGAGTATTTAAGTGGCTGAAGTGGTCAAGTGGTATTCTATAGTATTTGAAAATATAGCACCCTCACTATTTAAACACGGCTTAACAAGCTAATCAAGGTCTTACTAGACAAATTCAAAACTTTCAGACAGTTGGAGCTAAACTCTTTAGAACAGTGGCCCTCTAGGACTGAGTTTGGACACCCTTGTCTTGGGCTGACTTGATTATACAAGAGCTGACATTATTTATCATTCTCTGTTGTGTCAG
Seq C2 exon
CATGTGGTAAGCTGATGAAAATCACTGGGCCTATCACTGTGAAGACATCAGGAACGAGGTTTGGAGCATGGATGACAGATCCTCAGGCTTCACCGAAGAATAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000039174:ENSDART00000057238:3
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=0.055
Domain overlap (PFAM):
C1:
PF123083=Noelin-1=PD(1.0=1.4),PF097894=DUF2353=FE(48.0=100),PF115933=Med3=FE(50.3=100)
A:
NA
C2:
PF097894=DUF2353=PD(3.9=16.2),PF115933=Med3=PD(0.1=0.0),PF0219111=OLF=PU(12.8=86.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGCTGAAGGGGAAGATGAATGA
R:
TTGTTATTCTTCGGTGAAGCCTGA
Band lengths:
326-1010
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]