RnoINT0115401 @ rn6
Intron Retention
Gene
ENSRNOG00000010477 | Pomt1
Description
protein-O-mannosyltransferase 1 [Source:RGD Symbol;Acc:620078]
Coordinates
chr3:11265205-11267347:+
Coord C1 exon
chr3:11265205-11265301
Coord A exon
chr3:11265302-11267254
Coord C2 exon
chr3:11267255-11267347
Length
1953 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
CACAGGATCTGTTTCTGCAGGAC
3' ss Score
6.78
Exon sequences
Seq C1 exon
GCATGATGTCGCTGCCCCGCTGAGCCCCCATTCTCAAGAAGTCTCCTGCTACATTGACTATAACATCTCCATGCCTGCCCAGAACCTCTGGAAACTG
Seq A exon
GTGAGCTCCATGCGGAGGACTGCAGGGCGGGGTGCAGCAGGGGCTCATGGCTGTGAGTGGGGACACCTGCTTCCTACCTCAGAGTACCCAGAAAGCCTCAAAGATAATGGGTTCAATGTAAACTGCGATAAGGAACTTTTATTTACAAAGCAAGTCTCAGATGTCCCCATGGGGAACAGTCACCTCAGGCTGAGAATCCTTTGGGCCCTCAGGCATGGATTGGGAAAGCTCCAAATGCTGGGTCTGCCCTGCGAGGGCCTTTCCGTTCAGGGCCAGTCCAGCTGGAGCTGCTTCCTGGACTTTCACTTTTTTACCCCCTGTTCTAGTTCTTTCTGTTGCTGTGCCAAAAGCAACTTAGAGAAGGAAAGGGTTAAACTACAGTCCATTCCTCTGTCAGTCAGGGCAGGAACTTAAGCTGAAACCATGGTGGAAACACTGGCTCACTCCCAGATTCAAGCTTTCATATACAGTCCACGAAAATCTGCCTAGGGAATGGAGCTGCCCACAGTGGGCTGGGCCTTCCAACATCAGGTAACAGTCAAGGTCACTCCCTCACAAATATGCCAACAGGACAGTCTGATCTGGACATTCTCTCAGTTGAGATTCCCTTCTCAAATGACTCAGACTGTGTCACATTAATAATTAAAGCTAAGACCTCCTCCCACATGGCAGCCTCCCACCACTCCTATATCCCCTGAGAAGCCCTCAGCCAATTCTTACCCATAGTTAATAGGAGCACAAACAGTTTTCTGGTGAGGGACTTGGCCATTAGAGGGCAGTGCCTCTCTGGTGACAGTCACCTGCAACCCTTGCAGACTCAGGTCTCTTGGGAAAGTTGGCTGTGCAGAAAGAGTTCTGCCTCTAAGCCCATAGACTGGGGTCATTTCCAAGGAGAGGTCATACTGGCCTAGCTTCTGATTGGCTGCAGCAGCCCCAATTTCTCAGTTTCCCTCCCATTTTGGACCTCTCTACCTAGGTGGTGCCATTCCAGTTTGCTCCTGTACCCCTTGCTGGCTTCCTCAGCATGGGCCTGCGAGGACTACTCACCTCCACACATCTGACCCACCTAACCTGTTTTCACCTTGGATGTACCACACACATCCATGGGCCTTTCCATCCTCTGACTAGCCCTCCTGACTGGGCCTGCCTGATGACAGGCATGCGCCCCTAATCGTGGGAAGCCGTCCAAGGAGGAATGGCGCCAAGTCTCACTGACCTTCCTGCCAGCTGCTAATGGCTCCGCTGCTGACCCCTTCCCTGCCCCTTCCTGGCAGCCCTTTGAGTACCACTTACTACCCATCAAATAGAGCTTCCAGAAAGGGGAGCAGGCCACAGGAGTGGCTGCCTGGCCCAGGATATCTTCTCCTTGCTCAGCCTCTCGAGGTCTGTGGTGCTCATCAAGAGCCATGGTTGAGGAATCACAGGCTGTAACACAGTGCTCCCAGGCCAGGACCCTCCGTGAGCCGCTCTCAGAGATGGCATGACTCTAGAACTACCTTACACTGGCCAGATCGTCTAGGAAACATCCATGGTTTGGCTAGACATGTGTCCTCTTGTGACTGAATAGGTGCCTTTTGAGTCCCTGTGGGAAGTGCCTCCTGCAGCCTCAGAAAGGGACAGTACCCTGTGTCTGACTCAAGTGCTGTGGACTAAGGTGTATGGGCTCATGGAGGGTCTGTGCTTCCTTTGCTGGAGGACTCATCAGCTTAGGCCAGACCCAAACTGATTTGATAGCTGTGACTACTCTTCACTTACCTTAGGCAAGGGCCGAGAAACCATGGCGTCTGGTCTTTGGGTTGCCATTGAACACAGTCTGCAAAGGGATGGTTAACTGACTGGATGTGTTTCAGTTTATACTGGTTTATGGTGCTGGGGATCCAACCCAGGGCCTCACAAATGCTAGGCAAGTGCCCCACTACCAGCCCCCCAGGCTCACAGGATCTGTTTCTGCAG
Seq C2 exon
GACATTGTAAACAGAGAGTCCAACCAGGATACCTGGAAGACTATCTTGTCAGAAGTGCGCTTTGTGCATGTGAATACATCTGCCATCTTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010477:ENSRNOT00000015214:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.023 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0281514=MIR=FE(18.2=100)
A:
NA
C2:
PF0281514=MIR=FE(17.0=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:
GCATGATGTCGCTGCCCC
R:
CTTCAAGATGGCAGATGTATTCACA
Band lengths:
190-2143
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]