GgaINT0124513 @ galGal4
Intron Retention
Gene
ENSGALG00000003757 | POMT1
Description
protein O-mannosyl-transferase 1 [Source:RefSeq peptide;Acc:NP_001025856]
Coordinates
chr17:6223867-6224414:+
Coord C1 exon
chr17:6223867-6223917
Coord A exon
chr17:6223918-6224267
Coord C2 exon
chr17:6224268-6224414
Length
350 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAAA
5' ss Score
4.78
3' ss Seq
ACTGTTCTCTGTGATTTCAGAAT
3' ss Score
7.97
Exon sequences
Seq C1 exon
GTTACTTAGGAGGATTTGATGGAAACTTCTTATGGAACAGGATTGGAGCTG
Seq A exon
GTAAAAACTGATCTTCACTGTCTCATTCTTTTGGGAAAAAGGTTGTATTTCAGCAGCTGACATTCCTTTTGCCTGACTAGTGGAAAAAATGTTTTATCTGACACCTTCAGTTCTCCTCTGAAGTAAATCGTCTTCAAGTCTCTAACAGGAATTTAAGATATTATGTTGCTATAGCAACAACTTTTAAAATCAGTTAAAACAGTTTAAGCAATACAAGCCTGCCAATAAGGTGCTAAAAGCAGAAGTTAAATTCAACAACTCATTGAGTGTAGTTGTAGTTGTATTGATCTGGCTTATCTGCAATTAACATCTCCCATAGCTGTGTGTGTAACTGTTCTCTGTGATTTCAG
Seq C2 exon
AATACAGCATGAACGTTCCTGTGTGGTCCTTGCGGTTCCTGCCAGCACTGGCTGGTGCTCTCTGCATCCCCTTAGCATACCAGATTTTGGTAGAGCTGCAGTTCTCCCACTGTGCTGCGCTTGGAGCTGCTCTTCTGATTCTCTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003757:ENSGALT00000005964:5
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(6.9=100)
A:
NA
C2:
PF0236613=PMT=FE(19.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTACTTAGGAGGATTTGATGGAAAC
R:
CTAAGAGAATCAGAAGAGCAGCTCC
Band lengths:
198-548
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]