RnoINT0158910 @ rn6
Intron Retention
Gene
ENSRNOG00000012960 | Uap1l1
Description
UDP-N-acetylglucosamine pyrophosphorylase 1 like 1 [Source:RGD Symbol;Acc:1310630]
Coordinates
chr3:2583706-2584523:-
Coord C1 exon
chr3:2584161-2584523
Coord A exon
chr3:2583911-2584160
Coord C2 exon
chr3:2583706-2583910
Length
250 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGC
5' ss Score
10.08
3' ss Seq
TGGGCGTGCCTCTCCTCCAGGTT
3' ss Score
9.93
Exon sequences
Seq C1 exon
TGCAGCTGGCCTGGTCTCGTGACATCGGTCAGAAAGTCACGAGTACGGGCTGAGCCTGCTGCTGCAGTGGCACTATGGCCTCGGAGAGGGATGTGCGCGCAAAGCTGCAGCGCGCGGGCCAGGATCACCTCCTTCGCTTCTGGGCCGACCTGGCTCCGGAGCTCCGAGCGGCGCTGCTAGCTGAGCTCTCCTCACTGGAGGCTGACGCGCTGCGTGAGCACTGCCAGCGCGCCTCAGCCGCCAGCGCGCTAGCCTCGGGTCCTCTGCCGGACCTGGCGGCGCGCCTGCAGCCCCTGCCCCCAGAACGCTTGGGTAGCGCGATCCGCTGCGACCAAGAGACACGCCTGCGGTGGGAAGAGGAAG
Seq A exon
GTAGGCAATGCCGTGCCCGGCGGGGGTTGGGCAGGCGCTGCCCGCTGCGACCGGAAGAGTTAGTGCCTACGGGGGTGGGGGGAGTGGGGCGGAGTGGAGGGGACGGACTCGGGAAGTGCTGTGGGGAGTTTATTTGCCTTGCAGCGCTTTCCTCCTGCGCTTAGTAGACCCCAAAGTCGTGCAGTTGCAGGCTCACTTGTGGCTCTTCAAAGTGAAAGAGGTCTTTCCACTGGGCGTGCCTCTCCTCCAG
Seq C2 exon
GTTTCCGACAGATTGCTCTGAACAAGGTAGCTGTCCTGCTGCTGGCCGGTGGGCAGGGCACTCGCCTGGGCGTCACCTACCCCAAGGGCATGTATCAAGTTGGTCTGCCCAGCCAGAAGACCCTGTACCAACTGCAAGCAGAGCGGATCCGGCGTGTTCAACAGTTGGCTGGTCAGCGACTGGGGACCCACTGCACCGTGCCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012960:ENSRNOT00000017373:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.031 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0170413=UDPGP=PU(6.3=24.7)
A:
NA
C2:
PF0170413=UDPGP=FE(17.8=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:
TAGCTGAGCTCTCCTCACTGG
R:
GCAGACCAACTTGATACATGCC
Band lengths:
294-544
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]