DreINT0108832 @ danRer10
Intron Retention
Gene
ENSDARG00000040482 | osbpl3b
Description
oxysterol binding protein-like 3b [Source:ZFIN;Acc:ZDB-GENE-090109-1]
Coordinates
chr16:21611327-21612836:+
Coord C1 exon
chr16:21611327-21611449
Coord A exon
chr16:21611450-21611551
Coord C2 exon
chr16:21611552-21612836
Length
102 bp
Sequences
Splice sites
5' ss Seq
CCAGTATGA
5' ss Score
2.36
3' ss Seq
TTCTGCTTTATCACCCAAAGGAA
3' ss Score
6.45
Exon sequences
Seq C1 exon
GTTACTAGAAGAAGGCAATGTTCAATCTGCAGAGGTGCAGAAGCAGAGGATTGAACAGCTCCAGCGAGAACGACGCAAAGTCTTGGAGGAAAACCACATGACACATCAACCTCGATTCTTCCA
Seq A exon
GTATGACCTTACCATCCTACTTCATGTCCTTTAAAGAAAAACACATTGCATGACCAAAGTATACAGGGTGTTCAAATCTGTTTTCTGCTTTATCACCCAAAG
Seq C2 exon
GAAGTCCAAAGATGAAACCTGGGTGAGCAACAACACCTACTGGGACTTACGGAAAGATCCAGGATTCTCTAACCTTGACTGTCCAGTCCTGTGGTAATGCAGAGCAAGCCAACGTGCATCAGTTCTGCCTGCTTTTATCTTTTCTGGTCAACATTACAGCTTCAAGAGACAGAACGCCCTTTATAGTGAGGTACAAGAGACTGATGGCCACAGACATACAGTCTGATCATTTCTTATTACTCTTTATTTATTGTCCCAGCAGTTCAGTTGCCTTAACATGCTTACGTTATGTTGTAGTTTCATTTATGCAAATGGATCCCTCGTATGTATGAGAAATATGCAATCTTGGCTGAGTAAAACGATTTAGATTTTGTTGATGTGCACAATACCGTAGCACAAGCAACCAACAACAACAACAAAAAACTGTTGGATTGTGGTCCCTTGTGGCTAAATGTAGAACTGCAGATGGCTGCAGCCCAAAACATTTTATTTTGTAAGGAACTATATATATTATGTTGAACAAAACTGTTCCGTCTACCTCTTAAAATTAATCTGTTGGGGAATTTAGGATGTATATTAGACTATGAATATAATACACACAGTACAATGCCTTATAATACGATTATATAGATACACTTTACTAGAACTTTTAATCGATATATTGTCACAGAGTATTGTAATTTACGAATGCCTTTTATTCTGAGACTCTTGAATGAACACAATGGTTAAGATCCTCAGACATATTTATATTCATCTTTATTTATTCACAAGACTGACAGATGGCTCAACAGCACTCCATATTACCATCACACACACACACACACACACACACACACACACACACACACACACACACACACACACACACTCATATGAGCCTGGCAGTATTTTAAAGCTTCTTCCACACAGTTTGACCAGTAACCTGTGCTCATTTCACTACGCACTATGACACATGTTGGGGGACCGGGGCACTTGGGTGTTGATCACTTCAGCGTTTCCTCTGTCCTTCAATAAAGTCTCATTTAAAAGATTGCTCTTTGTTCATTTTTTTTTATTTGGGAAGTTCTGGACAGATCATCATTAGGTTGAGTGATGAATGTGGGGCACTTTACAGTGGAACCATAAATGCACTGTCATTATTTACCTGCATGGCATATAGAGGTATTTTTTGAGTGGGCGCTTATATAGTGGTTAAGGGAAAAACCAAGACAACCCACAGAATATTTCCTGCTGTCATATGCAGTTTCTTCTTATTTGTTCTTCATTTCTTGTAAGTATTTTACAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000040482:ENSDART00000145886:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.786 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0123713=Oxysterol_BP=FE(11.8=100)
A:
NA
C2:
PF0123713=Oxysterol_BP=PD(4.6=48.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCACATGACACATCAACCTCG
R:
TGTCTGTGGCCATCAGTCTCT
Band lengths:
247-349
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]