DreINT0117582 @ danRer10
Intron Retention
Gene
ENSDARG00000067670 | pomt1
Description
protein-O-mannosyltransferase 1 [Source:ZFIN;Acc:ZDB-GENE-060929-966]
Coordinates
chr5:50474255-50474577:+
Coord C1 exon
chr5:50474255-50474347
Coord A exon
chr5:50474348-50474480
Coord C2 exon
chr5:50474481-50474577
Length
133 bp
Sequences
Splice sites
5' ss Seq
CACGTAATA
5' ss Score
1.72
3' ss Seq
TCTACGTTTTTGTTTTTAAGACA
3' ss Score
6.64
Exon sequences
Seq C1 exon
GCAAAGTCTTGTGGTCAGCAGCCCACCCAAACCTGTCAGACATGGGGATATTATTCAGTTGCTGCATGGAATGACAACTCGCTACCTGAACAC
Seq A exon
GTAATACAATTATATCCAATGTTGATCTAATTATTTAATATTAATGGTTATAAATAAAACCATTAACTTTATATTATATTTCCTTTATCTCATTACAGCGGTTTTAGTAATAATCTACGTTTTTGTTTTTAAG
Seq C2 exon
ACATGATGTTGCAGCCCCCATGAGTCCTCACTCACAGGAAGTGTCGGGCTATATTGATTTTAACGTGTCTATGCCAGCTCAGAATCTCTGGAGAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000067670:ENSDART00000092002:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.094 A=NA C2=0.076
Domain overlap (PFAM):
C1:
PF0281514=MIR=FE(17.6=100)
A:
NA
C2:
PF0281514=MIR=FE(18.2=100)
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:
GCAAAGTCTTGTGGTCAGCAG
R:
ATTCTGAGCTGGCATAGACACG
Band lengths:
178-311
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]