GgaINT0124524 @ galGal4
Intron Retention
Gene
ENSGALG00000003757 | POMT1
Description
protein O-mannosyl-transferase 1 [Source:RefSeq peptide;Acc:NP_001025856]
Coordinates
chr17:6231029-6231589:+
Coord C1 exon
chr17:6231029-6231149
Coord A exon
chr17:6231150-6231491
Coord C2 exon
chr17:6231492-6231589
Length
342 bp
Sequences
Splice sites
5' ss Seq
AAAGTATGT
5' ss Score
6.93
3' ss Seq
GCAGTGGTGTTTTCTTCCAGGCC
3' ss Score
8.17
Exon sequences
Seq C1 exon
CTCAGTGGAGCATCTTTACCTGAGTGGGGATACCGGCAGCTGGAGGTGGTTGGAGAGAAGCTGTCCAAAGGCTACCACCAGAGCATGGTGTGGAATGTGGAAGAGCACAGATATGGGAAAA
Seq A exon
GTATGTCTCAGCCATGTTCTCTAAGCATGGTTCTGTGACTGGGGAGCTTCCTGTGGAGTACAGTGGTGGAAGGACTTAGTCTAGCAGAATTGGGACAGAGTGGGTGTGTTCCCAGGGTAACTGACATGGTCCTAGCCACACTCAGCCCAAGTAGTGGATTTGGGCAGTTTTTCAGTGAGGAGATTTACAAATCTCCTCAGAGAGCTCATACAATTGGACTGCACAGTGCTGAGGGGCTCCCTGAAGTCTGAGGAGCCAGGGGTATATCATATGTACCCTCCTTTTCTGGGTTTCTGGCTGTTAACGTTGTTACTGTTTCTGAGCAGTGGTGTTTTCTTCCAG
Seq C2 exon
GCCAAGAGCAAAAAGAGAGGGAAGTGGAACTCCACTCTCCCACACGGATGGATATAAGTAAAAACCTAAGCTTCATGGCAAAGTTCACAGAATTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003757:ENSGALT00000005964:16
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=0.333
Domain overlap (PFAM):
C1:
PF0281514=MIR=PD(21.0=90.2)
A:
NA
C2:
NO
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:
GTGGAGCATCTTTACCTGAGTGG
R:
TGCAATTCTGTGAACTTTGCCA
Band lengths:
214-556
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]