RnoINT0115411 @ rn6
Intron Retention
Gene
ENSRNOG00000010477 | Pomt1
Description
protein-O-mannosyltransferase 1 [Source:RGD Symbol;Acc:620078]
Coordinates
chr3:11258709-11260024:+
Coord C1 exon
chr3:11258709-11258855
Coord A exon
chr3:11258856-11259912
Coord C2 exon
chr3:11259913-11260024
Length
1057 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGC
5' ss Score
8.72
3' ss Seq
CAGCTGTTTGTCTCTGACAGAGA
3' ss Score
6.88
Exon sequences
Seq C1 exon
AATACAGTAGCAATGTGCCTGTATGGTCCTTACGCCTGCTGCCGGCGCTTGCTGGGGCCCTGTCAGTACCCATGGCCTACCAGATAGTGTTGGAGCTCCACTTTTCCCACTGTACTGCCATGGGAGCCGCCCTGCTGATGCTCATTG
Seq A exon
GTAAGCCTGGGGTCGGTGCCCACCTGCCTATGCCAGAGTACAGGGAAAAAAATCCAAGTACTTAGTGGCATTTCAACATGAGCCTTAGAGAGTAGTGCCTGGTGGCAGTGTGTGTACTGCTCTAGTGAACACATCTGCCTCATCCAGATTCCAGATGTGCTGCCCTCTCTGATGTAGGATTGATGGGCTGTGAGGTCAGACGATTTTTGGAAGTAGAAACGTGGCCATGGTAGCATATTAAAAGTGGGGGCTGCCAGACAGGGGGACACCTTGGCATACACATTCACACAAGTACACACAACACACACACACACACACACACACACACACACATACACACACGTATTTTTTTTTTAATTATAATACCTAAAGAAAATAGCCCTGTGCTTGGGGATGTAACATAGTGATGGCCCTGGTTCATCCCCAATACAAAAGCAAACAGACCCCATGCTGGTTCATGCTGGGCCTATAATTCCAGCACTGGAAGCCTGAGGCAGAAGAGCCTTGAGTGTGAGCTCAGCCTGGGCAATACAGCAAGATTATGTCCTCCCACCCCCACCCTCACCCCCTTTTTTTTTTTTGTCAAAACTTCCTTCTGTACCAACTACATGAAAATTTTCTTCTTGGTGACTGCAGAGGTAGCTCAGAGGTTGAGAGCACTTACCGGCCTTGTAGAGGACCTGAGTTTGGTTCCTAGCTTCCGAATGGTGACTTACTAACTCCAGTTCTAGGGAATTCAATGGCCTCTTTTGACTTCCACAGGCATTCACATACATACATGTCAGTAGAACGCATACCCATAAGATAACTCGTTGCTCCCTTAACAAGACAATAAAGTAACTGTGCTGTTTACATTGTATTAGGGACTTCAGGTTATCTGTAATGCCTTAAAATAGGCAGCAGCATATGTGGAAAGTTTTATGCACATCCCGACTTTGTATAGACAGAGACTGGCATCCTCAGAGGCTGGAGACACGGCTGTGTGCCCCTCTGGGACTGGTTCTGTATTCACAGCAGCCTGGGCTGCTCCGTGCTGACAGCTGTTTGTCTCTGACAG
Seq C2 exon
AGAACGCCCTAATCACTCAGTCCAGGCTCATGCTGTTGGAATCCATACTGATATTTTTTAACCTCTTGGCCGTGTTGTCCTATCTGAAGTTCTTCAACTCCCAAACACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010477:ENSRNOT00000015214:5
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(19.8=100)
A:
NA
C2:
PF0236613=PMT=FE(14.9=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:
CAGTAGCAATGTGCCTGTATGGT
R:
TGTGTGTTTGGGAGTTGAAGAACT
Band lengths:
254-1311
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]