RnoINT0115397 @ rn6
Intron Retention
Gene
ENSRNOG00000010477 | Pomt1
Description
protein-O-mannosyltransferase 1 [Source:RGD Symbol;Acc:620078]
Coordinates
chr3:11254026-11254925:+
Coord C1 exon
chr3:11254026-11254149
Coord A exon
chr3:11254150-11254773
Coord C2 exon
chr3:11254774-11254925
Length
624 bp
Sequences
Splice sites
5' ss Seq
CTTGTAGGT
5' ss Score
2.94
3' ss Seq
GTTCTTCCCGTCTTTTCCAGGGT
3' ss Score
11.35
Exon sequences
Seq C1 exon
CGAAAAATTAGTTGGGCGCTCCGGAGTAATCGAGCAGCCTCTCCCCCAACGGTCGAACCAGCTTGGCGGGTTGCAGGCCTGGCTCCACATGGGGAACCGCTCAATGGGACGCGAAGATACGCTT
Seq A exon
GTAGGTTTTGGAGTGCCGGATTCGAGAGCCCTGCTGGGGTCTGGGATCCGGCCTGGGAGCGGCGTGCTAGGGTCGGCAGATGTTCCGATCCTGGCCGAGAAAGGCGGTTCCGGGGTGTCCTGTGGGAAAAGAGCCGGGGTGGGCAGAACTGTAGAGAAAGAACGGGCTCGGGGCACAAGCAGCTCTAGGAGGAGAGGAATGCCGCCAAAATAGAGGGGAAGTCCATCCAGATCACTGGGTTATGACGGTGCTCAGAGCTCCCGCCTCAGGGTTTTAGTTTTCAACCACACTGGGAAGGCACAAGAGAGGCCACATCATTCATTAGCAGCCTTGTTCCTAGCAAATGCCCAGCAGGTGTTTATGGAATGACTTGTAGAAGTTGAGTGTCCAGTTCTGAAATTCTTGAATTCGCCCCTCAAATGTTTTTATGTGTAGCATGTGGTTGAACACAACTGTAATTCTCCAACAGGTGTGTTCTAGAAGAGTCCTTCTGGCTATTAACCTAACCCACTATGCTGTAATTCATCTCGGTGCCAGGCCGCTTTGGAATCCTGTAGCCTCTTTTGAACCTTTCCCGGCTGCTATCCACTTACTTTTAATGGTAGTTCTTCCCGTCTTTTCCAG
Seq C2 exon
GGTGTCCTCCCGAGCTTGCTTTTCTGCAAAATGTTGAGATTTTTGAAACGGCCTCTAGTGGTGACTATTGACATCAATTTGAATTTGGTGGCTCTGACTGTCCTGGGACTACTTACCCGGTTATGGCAACTCTCCTACCCTCGGGCTGTGGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010477:ENSRNOT00000015214:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.083 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0236613=PMT=PU(23.9=41.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGAAAAATTAGTTGGGCGCTCC
R:
GCCCGAGGGTAGGAGAGTTG
Band lengths:
270-894
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]