DreINT0108360 @ danRer10
Intron Retention
Gene
ENSDARG00000014053 | olfm1b
Description
olfactomedin 1b [Source:ZFIN;Acc:ZDB-GENE-040801-228]
Coordinates
chr21:6862655-6863653:+
Coord C1 exon
chr21:6862655-6862810
Coord A exon
chr21:6862811-6863153
Coord C2 exon
chr21:6863154-6863653
Length
343 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAC
5' ss Score
8.14
3' ss Seq
GTGTTGTTTCTTGCTTGCAGGGC
3' ss Score
11
Exon sequences
Seq C1 exon
GTGCAAAACATGACGCAATCAATCCAAGTATTGGACCAGCGGACCCAGAGGGACCTGCAGTACGTGGTAAAGATGGAGGATCAACTCCGTGGCCTGGAGACCAAATTCAGACAGGTGGAAGAGAACCACAAACAAAACATCGCCAAGCAATACAAG
Seq A exon
GTAAACACCCACAATGCGCACCTCAGGCCATATGGATGCAACACACGCACAATAACACACCCCAGACTGCATGTATCTTATAAATCCTTGTGTGCTTTTAGCGAAATATGCAGACCTGTGCGATATAAAGCATTGTTTTTGACCTTAAAATCAGCTAAATATTTTCAGGATCTGCAGATTTCAGTTTCCACACTTGACACATGCATGAAATGTGATTTTGTTTGCACTCTGTAACACAAGTGAGTGTGCATGTGAGTACGTGAGTCTCTGTGTGTGACTGCCAATGTGTTAGCTAGTTAGCGAGTTAGCTCCCTGTGCTGAGTGTGTTGTTTCTTGCTTGCAG
Seq C2 exon
GGCTAACTATAAAGACATGATAGGAGAGCCAGAGGCCAGAAGAAGCAGGTCTAACCCACGATTGGCTGAAGTGGGCGTCAGTCACGCTGTTTATGTCACGATTCTCATATTCTATACGACATTAGCTGTAAGAAACACCCTCCCCCCCTTTCCTTACCAACCACCAATCAGATCTCCTCCTGCATGCTACTCTAAAGAATTATTATTGTTACGTTTTATTTATATGAACTACATTATTAAGTTCCATTGATATATATTGCTATTATTATTATTATTAGTATTTCTACCATTATTATTCTCATCTTTGCTAGTATTGCTTAAGTTTTTTTTATGATTTGTCACTATGAATCTCATGTTTTTGAAGTAATATGCGTTTACTTTGGAAGTCAAGAATTCAATCTTAACATCACATTGTTGTATGTGAGTTGTAATTTCAGCATGTGTCCCTTTCTGCTGTTGCATTCTAAACGATAAACTAATAAAGTCTTTTCCCAATTGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000014053:ENSDART00000037265:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.119 A=NA C2=0.800
Domain overlap (PFAM):
C1:
PF0081212=Ephrin=PD(46.3=96.2),PF123083=Noelin-1=FE(50.5=100)
A:
NA
C2:
PF123083=Noelin-1=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGCAAAACATGACGCAATCA
R:
AGCATGCAGGAGGAGATCTGA
Band lengths:
344-687
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]