GgaINT0124517 @ galGal4
Intron Retention
Gene
ENSGALG00000003757 | POMT1
Description
protein O-mannosyl-transferase 1 [Source:RefSeq peptide;Acc:NP_001025856]
Coordinates
chr17:6226236-6226950:+
Coord C1 exon
chr17:6226236-6226329
Coord A exon
chr17:6226330-6226794
Coord C2 exon
chr17:6226795-6226950
Length
465 bp
Sequences
Splice sites
5' ss Seq
AATGTAGGT
5' ss Score
5.12
3' ss Seq
AGTTCTCTGTGTTCTTCTAGGTT
3' ss Score
10.95
Exon sequences
Seq C1 exon
AGTGAAATACATGGGCCTGTTTACATATATGCTGCTCCTGGCCATTGCAGGACTCCACTTCTGGCACATGTTAGGAGACCGGAACTTGTCAAAT
Seq A exon
GTAGGTGGTGCAACATGCAAAATAAATCACGTATAACATAGCAGAACAGGAGCCACCTGGGAGCCTTGCAAGCCCACAGATAACAATGCTGGCTGTAGCTGTTTTTTTACTCTAGCATTCCTTGTTGTAGCCTGCAAACCTTCATGTCACAGAACAGTTTTTCAGCTCAGTAGCTGGGGAATATGGGGTTAAGTTTAAGAAAAGCATGTGTGTCTGACTGGCTTTTCTGCTTTTATCTGTGCCTTGCTGATTTGTGGCTCAGAATCTGTAGTGTTTCACATAACTCCTGCTGGCTCCAGTTCAGATCCTCAGTGGAGATCATCCAGCTGTCCTCCATGTTACAGATGAGTAAGGGTGACTGGGGAAACTCAAGAATAGGCAAACAAAGCAAGGCAAATGCACTGATATTTTTAGGATTTTTAATACTTGGAGCGTGAAAGCAGTGAGTTCTCTGTGTTCTTCTAG
Seq C2 exon
GTTTCCTTGGTGTGCCATTTTCTGGCTAGGGGACTGACCCTCCTCGTCATCCCAGTGGCCATGTACCTGTCCTTCTTCTTTGTGCACTTGACTTTGCTGTATCGCTCTGGGCCTCATGACCAGATTATGACAAGTGCTTTCCAAGCCAGCTTAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003757:ENSGALT00000005964:9
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(12.5=100)
A:
NA
C2:
PF0236613=PMT=PD(13.3=63.5)
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:
AGTGAAATACATGGGCCTGTT
R:
TTGGAAAGCACTTGTCATAATCTGG
Band lengths:
238-703
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]