RnoINT0158911 @ rn6
Intron Retention
Gene
ENSRNOG00000012960 | Uap1l1
Description
UDP-N-acetylglucosamine pyrophosphorylase 1 like 1 [Source:RGD Symbol;Acc:1310630]
Coordinates
chr3:2583326-2583910:-
Coord C1 exon
chr3:2583706-2583910
Coord A exon
chr3:2583502-2583705
Coord C2 exon
chr3:2583326-2583501
Length
204 bp
Sequences
Splice sites
5' ss Seq
CTGGTGTGT
5' ss Score
4.96
3' ss Seq
CACTGCTAGGTCTTTTACAGGTA
3' ss Score
4.4
Exon sequences
Seq C1 exon
GTTTCCGACAGATTGCTCTGAACAAGGTAGCTGTCCTGCTGCTGGCCGGTGGGCAGGGCACTCGCCTGGGCGTCACCTACCCCAAGGGCATGTATCAAGTTGGTCTGCCCAGCCAGAAGACCCTGTACCAACTGCAAGCAGAGCGGATCCGGCGTGTTCAACAGTTGGCTGGTCAGCGACTGGGGACCCACTGCACCGTGCCCTG
Seq A exon
GTGTGTCCTCCATGCCAGCCTCCCAGAAAGACCACGCCTACGTGCCTGCCCCACACCAACACTTTAGACCCAATCTTAGCACGGCCCTAGACAGAGCCCAGTACTTACTTGCCCTTACTGAACCCCATCTAGACCTGTTCCTGCCACACTCGCCAGATCGAGCCAGATTCCCCTGGAAGCAGCTCACTGCTAGGTCTTTTACAG
Seq C2 exon
GTACATCATGACCAGTGAGTTTACACTAGGACCCACAATCAAGTTCTTCAAGGAGCACGACTTCTTTCACCTAGACCCCGCTAACGTGGTGCTGTTCGAGCAGCGCATGCTACCTGCTGTGACCTTTGAGGGCAAGGCCATCCTGGAACGGAAAGACAAAGTTGCCATGGCCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012960:ENSRNOT00000017373:2
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:
PF0170413=UDPGP=FE(17.8=100)
A:
NA
C2:
PF0170413=UDPGP=FE(15.5=100)
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:
CCCCAAGGGCATGTATCAAGT
R:
GGGCCATGGCAACTTTGTCTT
Band lengths:
299-503
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]