RnoINT0158912 @ rn6
Intron Retention
Gene
ENSRNOG00000012960 | Uap1l1
Description
UDP-N-acetylglucosamine pyrophosphorylase 1 like 1 [Source:RGD Symbol;Acc:1310630]
Coordinates
chr3:2582923-2583501:-
Coord C1 exon
chr3:2583326-2583501
Coord A exon
chr3:2583096-2583325
Coord C2 exon
chr3:2582923-2583095
Length
230 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
CCATTCCTTCTCCTCTGTAGATG
3' ss Score
9.68
Exon sequences
Seq C1 exon
GTACATCATGACCAGTGAGTTTACACTAGGACCCACAATCAAGTTCTTCAAGGAGCACGACTTCTTTCACCTAGACCCCGCTAACGTGGTGCTGTTCGAGCAGCGCATGCTACCTGCTGTGACCTTTGAGGGCAAGGCCATCCTGGAACGGAAAGACAAAGTTGCCATGGCCCCAG
Seq A exon
GTATGGCCCACACTTTGGCCGGGGAAAGGTTGCCCCACCTGGGCCACAGAATACAGGCAGCTGTGGGTCAGGAAGCCTGACACCCAGGTAGGATGTACTCAGGCAGGCTTTGTGGCCCTGGCTAGTCTGGAGTCACGGGCCCTTGGTGGTTTGTGCTCCTGTAGCGTTTACTAGACTGAGCAGGAGATCGAGCCGGAGTCCATGGGTAGCCCATTCCTTCTCCTCTGTAG
Seq C2 exon
ATGGTAATGGAGGCCTGTACTGTGCACTGGCTGACCACCAGATCCTGGAGGACATGGAGCAGCGGGGTGTGGAGTTTGTGCATGTGTACTGTGTCGACAACATCTTGGTGCGGTTGGCTGACCCAGCCTTCATTGGCTTCTGTGTGCTTCAGGGAGCAGACTGTGGTGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012960:ENSRNOT00000017373:3
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(15.5=100)
A:
NA
C2:
PF0170413=UDPGP=FE(15.0=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:
GGAGCACGACTTCTTTCACCT
R:
ACCACAGTCTGCTCCCTGAAG
Band lengths:
292-522
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]