GgaINT0124523 @ galGal4
Intron Retention
Gene
ENSGALG00000003757 | POMT1
Description
protein O-mannosyl-transferase 1 [Source:RefSeq peptide;Acc:NP_001025856]
Coordinates
chr17:6230450-6231149:+
Coord C1 exon
chr17:6230450-6230542
Coord A exon
chr17:6230543-6231028
Coord C2 exon
chr17:6231029-6231149
Length
486 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
AGTTGCACTTTCACTTTCAGCTC
3' ss Score
9.11
Exon sequences
Seq C1 exon
GAAATCGTCAATCGGGAGTCTGACACGGATGTGTGGAAGACCATTCTGTCAGAAGTGAGGTTTGTTCACGTGAACACCTCTGCAGTGCTAAAG
Seq A exon
GTGAGTGGATTTATGTTTATTTGCCAACAGTTTTTCCTCCGTGCAACTCTCACAATCTCGTAAAATACTGATCTCTCTGTTCTGAAATGCCTAAACAACGTGAAACAAACGTAAATTAATTCAGGGAAACAGTGCACTTGCTCAGTGTGGTCAAAGGGCAGCATGTGTTTCAGGTAGTTGCTTCATTTTTTCAGCATGCAGAGCTGTCCTGCTTCTCAGAAAGTTACGGCCACCGTACACAAGTGAGCCGTAGATGCTGAGGCTGTGTGTAGTATGTGGCAGCAGATGGAATAGTGAAGGATCTCTCCACAAAGTTGGCCAGAATTGCTGACTTTCTGGCTGTAGCATCTGTTCAGATGTATTGCATGGTGACTTGTCCTGTACTTTGTAGCAGGGCCTTGCTGTGATGGGCTGCACAGCCAGGCCGAGGAACTTTCAGCCTGAGGTTCAAAGTAGCAGGACTGTAAGTTGCACTTTCACTTTCAG
Seq C2 exon
CTCAGTGGAGCATCTTTACCTGAGTGGGGATACCGGCAGCTGGAGGTGGTTGGAGAGAAGCTGTCCAAAGGCTACCACCAGAGCATGGTGTGGAATGTGGAAGAGCACAGATATGGGAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003757:ENSGALT00000005964:15
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:
PF0281514=MIR=FE(17.0=100)
A:
NA
C2:
PF0281514=MIR=PD(21.0=90.2)
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:
GAAATCGTCAATCGGGAGTCTGA
R:
TTTTCCCATATCTGTGCTCTTCCA
Band lengths:
214-700
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]