RnoINT0115410 @ rn6
Intron Retention
Gene
ENSRNOG00000010477 | Pomt1
Description
protein-O-mannosyltransferase 1 [Source:RGD Symbol;Acc:620078]
Coordinates
chr3:11257682-11258855:+
Coord C1 exon
chr3:11257682-11257732
Coord A exon
chr3:11257733-11258708
Coord C2 exon
chr3:11258709-11258855
Length
976 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
CTATGTGATTCCTTTTCCAGAAT
3' ss Score
9.54
Exon sequences
Seq C1 exon
GTTGGCTAGGAGGATTCGATGGGAACTTTCTGTGGAACCGAATTGGAGCAG
Seq A exon
GTAAGGATTTTAACTCTCCTTATGACTACACCTGAATGAAGCTATGGTGTCCATCAAAGACCCAACACCTTTTACTGATCCAAACCAGGATACAACTGGTTATTTGGGTACGGGTGAGCATCTGGTTAAAGGGGCTGGAAAGATGGCTCAGCAGTCAAGAGCACTGACTGTCTTCCCAGAGGACCAGGACGTGATTTCTAGCTCCCACACGATGGAGTACAACCACTGTAACTCCGGTTTCGGGGAGTTTGCCACTTTCTTTTGGCTAGGTGTGTACAGTCATATGTGCAGACAGAACATCCACGTACATAAATAAGACTTAAAAGGAAAGAAAAGTCTGCATAAAGTTTTAAGTGCTTTGTGCTTTAATTATTTTATCCCGTCTCTTGGCGCATGCCTTCTGTGGCATTTGGTAACATTGTCTCTCATATGTATAAACTTTGTGGCCATAACATTTTTTAGAGCTTCTTGGGGTATGTATGCTAGATAAGCAGTAATTTCAGAGTCATTCCTCATCATATCCATGTTTGGTGAGATCTGGTGCCTTGACAGCAAAGCTGATTTCAAAGCAGTTCGGGCGGATGATCATTGATGTTTACTATGCAGAGAGGCTGAGGCAGGAGGATCACCTGAACTCAGGAGATTGATACCCTAAGCAGGGTCTCACCATGTAGTCTTGACTAGTTTGGAACTTGCTATGTACACCAGGCTGGCCTTGAACTCACAACAATCGTCCTGCGTCTGTCTCTCAAGTGCTGGGATTTAAGGTGTGCATCACCATTCCAAGTGGTGAAACCCAGTCTCTGAAAACCACCCACCACATAAATTCCAAAGCTCATTTTAAAGACTTTACCCCAAGGTCCCACCCTCAGTAGCTCATGTGCCTCCCAGTTTTATAAGGTTGCATTTGCAAGTCTGTGAGCTTCTGTGTGTCAGTAGGCAAGCTCTCAGCTCTGCTATGTGATTCCTTTTCCAG
Seq C2 exon
AATACAGTAGCAATGTGCCTGTATGGTCCTTACGCCTGCTGCCGGCGCTTGCTGGGGCCCTGTCAGTACCCATGGCCTACCAGATAGTGTTGGAGCTCCACTTTTCCCACTGTACTGCCATGGGAGCCGCCCTGCTGATGCTCATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010477:ENSRNOT00000015214:4
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(19.3=100)
A:
NA
C2:
PF0236613=PMT=FE(19.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTGGCTAGGAGGATTCGATGG
R:
CAATGAGCATCAGCAGGGCG
Band lengths:
198-1174
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]