GgaINT0124511 @ galGal4
Intron Retention
Gene
ENSGALG00000003757 | POMT1
Description
protein O-mannosyl-transferase 1 [Source:RefSeq peptide;Acc:NP_001025856]
Coordinates
chr17:6222755-6223267:+
Coord C1 exon
chr17:6222755-6222898
Coord A exon
chr17:6222899-6223160
Coord C2 exon
chr17:6223161-6223267
Length
262 bp
Sequences
Splice sites
5' ss Seq
TGTGTGAGT
5' ss Score
5.84
3' ss Seq
CTGTGTCTCTTGTGTTTCAGTTT
3' ss Score
11.1
Exon sequences
Seq C1 exon
GCTTGGACAGACCTTTGACAGGATGTTGGGATTTCTGAAGAACCCAGTTGTGGTTACTGCAGAGATAAATCTCAACCTTGTGGTGCTGACTGTCATGGGATTAATAAGCCGTCTATGGGGGCTTTCCTATCCACGTGCTGTTGT
Seq A exon
GTGAGTAGAATAGTTTCGTTCCTACTAGAGCAACACAAACTTTTATTTTTTAAGCATTTGTGGGTAAGAATAAGGGGATGAGAGAGCAGAGGATGTCTCTGTAATAAAACCCCGAAGGGGAAGATAAAGGGTCCAAAGCTGCCACACTGTGTTGTATCGTTAGCTTTCTGCTAATGTTATCAGTGTTTCCTTCTCTAGTCTTTCTGTAGCCAGCAGGGTCCCTGTAATTAGACTTGATGTGTCTGTGTCTCTTGTGTTTCAG
Seq C2 exon
TTTTGATGAAGTTTATTACGGCCAATTTGTTTCCCTCTACATGAAGAGAATCTTCTTTGTGGATGACAGCGGCCCACCGCTTGGCCATATGCTGCTGGCTTTGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003757:ENSGALT00000005964:3
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(11.4=51.2)
A:
NA
C2:
PF0236613=PMT=FE(14.5=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:
GCTTGGACAGACCTTTGACAG
R:
CAGCATATGGCCAAGCGGTG
Band lengths:
238-500
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]