RnoINT0158916 @ rn6
Intron Retention
Gene
ENSRNOG00000012960 | Uap1l1
Description
UDP-N-acetylglucosamine pyrophosphorylase 1 like 1 [Source:RGD Symbol;Acc:1310630]
Coordinates
chr3:2580811-2581570:-
Coord C1 exon
chr3:2581385-2581570
Coord A exon
chr3:2580878-2581384
Coord C2 exon
chr3:2580811-2580877
Length
507 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
TGACTGCTGCTCTTCCCTAGCCT
3' ss Score
7.2
Exon sequences
Seq C1 exon
GAACTTTGTTGCCTTTGAAGTGTGTCGGGAGGAGGAGTTCTCCCCACTGAAGAATGCTGACACAGCCGACAGGGACAATCCCTCCACCTCCAGGCGAGCCTTACTAGTTCAGCACTACCGCTGGGCTCTCCAGGCTGGAGCCCACTTCCTGGATGTACACGGGGTCCAGCTTCCGGAGCAGTCTGG
Seq A exon
GTGAGGGGCTCAGCTTAGCCCGGGAGGTAGTATTCTTGTCCCAGGGCCCTGGTGACGCTGCCACTGTCCCAGCTTGCTTCTGACCCAGTGCCACCTCAAATGCAGACAGCTATGTTCCCAGCCAGTTCCCAGCCCAGCTTCTTAGTCTCAGGGTCTGCTCAGGGAACTAAGAGGGCAGGGTCTCAAATAACCCCCAAGCAGGCTCTCATAAGCTTTGAAGATGAGACCTAGGCCTAACCCTCAAGAGACATGAGGAAGTCTCTTTAGCACAGGAGAGGAAAAGGACCTTCGGTGTCTGTCTCCCCTGTTGTCATTCTGGAGCTGTGGGTAGGCCAAGCTGTCTGAGCTCTGTTTAGTTAGGCCAGAGCCTGGCGTCTGGCCTTATGGTTTGGGCTGTGCAGAGGGAAGAATTTGTATTCATGCTGGGCAGACACTTACCAGCCCACGTCCTGAGGGAGCTGGGAGGATCCCCATGAGAGGCAGGTGCTGACTGCTGCTCTTCCCTAG
Seq C2 exon
CCTGCTCCCAAATGGAGACCCTCCAGCCATCTGTGAGATATCGCCCTTGGTGTCTTACTCTGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012960:ENSRNOT00000017373:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.222 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0170413=UDPGP=PD(15.7=95.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTTGCCTTTGAAGTGTGTCG
R:
TCTCCAGAGTAAGACACCAAGGG
Band lengths:
246-753
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]