RnoINT0115406 @ rn6
Intron Retention
Gene
ENSRNOG00000010477 | Pomt1
Description
protein-O-mannosyltransferase 1 [Source:RGD Symbol;Acc:620078]
Coordinates
chr3:11269589-11270753:+
Coord C1 exon
chr3:11269589-11269715
Coord A exon
chr3:11269716-11270575
Coord C2 exon
chr3:11270576-11270753
Length
860 bp
Sequences
Splice sites
5' ss Seq
AGGGTTAGT
5' ss Score
5.02
3' ss Seq
TGAGATATACCCTCCCACAGATG
3' ss Score
7.27
Exon sequences
Seq C1 exon
GCCCAGATCCACTTGCTTGGAAACATCGTGATCTGGACTTCAGCCAGCCTCGCCACAGTGGCATACACCCTACTCTTCTTCTGGTACCTGCTCCGCCGTCGAAGGAACATCTGTGACCTCCCTGAGG
Seq A exon
GTTAGTGTCTCCTCCCTGGATGGGAGCACATTGTGCACTGTGACAGCCAACTTTACTAGGACCCGAGGCCCTGGGACCCCTGCTTTTACAGGTAGGGCCTGAAAACAACCTGTGGCAGTTAAGATCCACATCACAAGAACAGGGCAGAGGACAGAGCCTTAGTTCCAGGGTGCCTCCATGCACCAGAATCACTGGGGTGGATAAGGCACAGCAGCCAGCAGGAGGCTGATGGGCAGTGGCTGTGAGCAGCTGACAGACGCACTTGGAAAGAAAACCCCAGCAGCAGCCCCCGAAGGTTGCTGAAGGCAGTGTGATACCATGGCCTACAGTCTCTGTTCTCTTAGAAAACACTGTCCCTTCTTTCTTTTTTTTATAAAGATTTATTATATATAAGTACACTGTAGCTGTCTTCAGACACACCAGAAGAGGGCATTGGATCCCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTAAACTCAGGACCTCTGGAAGAGCAGTCAGTGCTCTTAACCACTGAGCCACCCCTCCAGCCCCAACACTGTCCCTTCATTCTGGGCTGGATACAAATGGTATCTCTGTGGCTGCCTGAGGTCAGACAGTAGGATTCTTAGATGAAAACCACCAGGCCTTACAATGGTCATTAGTTAAGGTTGGCTGTGACCTCGCAGGGCCAGGTCTGACCTCATCCCCAGCTTGGGGCCTTGCAGAAAGGGTTGTCAAGACACAGGAGGAATCATCAGTGTCAGCCCCTTAGTCCTGGGGGTGGGTGAGGTGCCGAGGACAGTGTGTGACAGGAATGTGCCACTGCTAGCCCAGTGATGGAGCTGCTCTGAGATATACCCTCCCACAG
Seq C2 exon
ATGCCTGGTCCCACTGGGTGCTGGCTGGAGCCCTGTGTATTGGCGGTTGGGCACTCAACTATCTGCCCTTCTTCCTGATGGAAAGGATGCTCTTCCTCTACCACTACTTGCCGGCCCTCACCTTCCAGATCCTGCTGCTCCCAATCGTCATGCAGCACGCCAGCGACCATCTGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010477:ENSRNOT00000015214:18
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCCAGATCCACTTGCTTGG
R:
CTGCACAGATGGTCGCTGG
Band lengths:
305-1165
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]