RnoINT0115415 @ rn6
Intron Retention
Gene
ENSRNOG00000010477 | Pomt1
Description
protein-O-mannosyltransferase 1 [Source:RGD Symbol;Acc:620078]
Coordinates
chr3:11261272-11262343:+
Coord C1 exon
chr3:11261272-11261427
Coord A exon
chr3:11261428-11262212
Coord C2 exon
chr3:11262213-11262343
Length
785 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
GACTTTTCTATTTGTCTTAGGGA
3' ss Score
8.59
Exon sequences
Seq C1 exon
ATCTGCGTGCTCAGTCACTTGCTCGCCAGAGCCGTAGCTCTGCTGGTCGTCCCGGTCTTCCTGTACTTACTGTTCTTCTATGTCCACCTGATGTTGCTCTACCGCTCTGGGCCCCATGACCAAATCATGTCCAGTGCCTTCCAAGCCAGCTTGGAG
Seq A exon
GTAAGAAACCTTTCAGAACAAAGATAGTCAGGCTCAGAATGTCCATTTAAGCAGGTCCGTAGCCCTTAGGTGGTTTTAAATAACCAAATGAGCAGATAGCAGGCAGATAAAATAAAAAGACAGTGTCACCTGAGCAGTGCAGCAAAGATCAAGGCACAAAACAGCCACTTTCATTCTCATTTTTTATTTGTTTGTCAAGGAATGGTTTCTCAGTGTAGCCCTGGCTGTCCTGAAACTCACACTATACATCAGGTTAGCCTTGAACTCAGATCTGCCTGCCCCCGCCTCCTCAGTTTGGGATTAAAGGTGTTTGGCCACCACCAATCGGCCCATATTGTTAAAGGAATTCTGAAATATTGATTGTGTGGGAATACTGCTTTCATAGCCTGACTTGCAGTTAAACACCTCATGAGATAGACTCAAGCCTGGCGCCCATTACACTGATTAGCTACAGTACCCTGGTCTCATTTCCTCATCTCTTAGACCTGTGGCTGGCCGCTCTCACAGCATAGATACCCGTGTAAGGAAGGTGTGGTGGGAATGCCTGGCCAGGGAACACACGCCCATTCATGGTTTAGTTCAGCAGGACCCAAGTCAATGAGAGTTAGTTACAACTAATATGTGGTCATCTCTGCTACTGCCCACCTGTCACCAAGGCCAGCTTAGGAGACGGCACCATAGCAAGGGCAGCTGCCGCCGAGCCTGACTCCTCTTTCTGGCTTTGGATCCACGGGGTAGGATGATTTGTCTCTTGAGCTCATCTGAGACTTTTCTATTTGTCTTAG
Seq C2 exon
GGAGGGCTAGCCCGCATCACCCAAGGCCAGCCCCTAGAGGTGGCCTTTGGTTCGCAGGTCACTCTGAAGAGCGTCTCCGGCAAACCCTTGCCCTGCTGGCTTCATTCGCACAAGAACACCTATCCCATGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010477:ENSRNOT00000015214:9
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=PD(13.3=63.5)
A:
NA
C2:
PF0281514=MIR=PU(6.2=25.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCTGCGTGCTCAGTCACTTG
R:
TCATGGGATAGGTGTTCTTGTGC
Band lengths:
286-1071
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]