DreINT0117591 @ danRer10
Intron Retention
Gene
ENSDARG00000067670 | pomt1
Description
protein-O-mannosyltransferase 1 [Source:ZFIN;Acc:ZDB-GENE-060929-966]
Coordinates
chr5:50465387-50465637:+
Coord C1 exon
chr5:50465387-50465493
Coord A exon
chr5:50465494-50465586
Coord C2 exon
chr5:50465587-50465637
Length
93 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
AGTGTTATTTATCTGTTTAGCGT
3' ss Score
6.46
Exon sequences
Seq C1 exon
GTTTGATGAGGTTTATTATGGACAGTTCCTGTCATTGTACATGAAGCAGGTTTTTTTCATAGATGAAAGCGGTCCTCCTTTTGGACACATGATACTTGCTTTAGGAG
Seq A exon
GTGAGGAATAACGTATTTATTATTTGTAAGTTACTTTTATGAGGTAAGCCACTTATTTGTATATGTACTAATGAGTGTTATTTATCTGTTTAG
Seq C2 exon
CGTATTTAGGAGGATTTGATGGCAACTTTGTTTGGAACAGAATTGGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000067670:ENSDART00000092002:3
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=0.000
Domain overlap (PFAM):
C1:
PF0236613=PMT=FE(14.8=100)
A:
NA
C2:
PF0236613=PMT=FE(7.0=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:
TGAGGTTTATTATGGACAGTTCCTG
R:
TGCTCCAATTCTGTTCCAAACA
Band lengths:
151-244
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]