DreINT0117590 @ danRer10
Intron Retention
Gene
ENSDARG00000067670 | pomt1
Description
protein-O-mannosyltransferase 1 [Source:ZFIN;Acc:ZDB-GENE-060929-966]
Coordinates
chr5:50465164-50465493:+
Coord C1 exon
chr5:50465164-50465294
Coord A exon
chr5:50465295-50465386
Coord C2 exon
chr5:50465387-50465493
Length
92 bp
Sequences
Splice sites
5' ss Seq
AGTGTAAGT
5' ss Score
8.46
3' ss Seq
TGTGTACCACCTTTGTTTAGGTT
3' ss Score
8.36
Exon sequences
Seq C1 exon
TCAGGATTGAGCATGCAGTGTGTTAAACTGCCCGTCAGTGTGACAGTGGAGATAAATGTGCTGCTGCTGGCGGTTACAGCACTTGCCCTCTTTACTCGACTTTATGGCATTCACTTTCCCAAAGCTGTAGT
Seq A exon
GTAAGTGTGCTTCTAATTATTATCATATTTAAACATTTTCTTTAAAATGTATTATTAGCGTATAAACTCATATGTGTACCACCTTTGTTTAG
Seq C2 exon
GTTTGATGAGGTTTATTATGGACAGTTCCTGTCATTGTACATGAAGCAGGTTTTTTTCATAGATGAAAGCGGTCCTCCTTTTGGACACATGATACTTGCTTTAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000067670:ENSDART00000092002:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0236613=PMT=PU(8.6=52.5)
A:
NA
C2:
PF0236613=PMT=FE(14.8=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:
TGGAGATAAATGTGCTGCTGCT
R:
CCAAAAGGAGGACCGCTTTCA
Band lengths:
169-261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]