RnoINT0158914 @ rn6
Intron Retention
Gene
ENSRNOG00000012960 | Uap1l1
Description
UDP-N-acetylglucosamine pyrophosphorylase 1 like 1 [Source:RGD Symbol;Acc:1310630]
Coordinates
chr3:2582091-2582827:-
Coord C1 exon
chr3:2582634-2582827
Coord A exon
chr3:2582232-2582633
Coord C2 exon
chr3:2582091-2582231
Length
402 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
CTTTGTCCTCTTGCTGCCAGGGA
3' ss Score
8.19
Exon sequences
Seq C1 exon
GTCGTGGAGAAAGCGTACCCAGAAGAGCCAGTGGGTGTGGTGTGCCAGGTGGACGGTGTCCCGCAGGTGGTTGAATACAGCGAGATCAGCCCTGAGATTGCTAGGCAGTGTGGGGCTGATGGTGGCTTGCTCTACAACGCAGGCAACATCTGCAACCATTTCTTTACCAGAGGCTTCCTGGATATGGTCATCAG
Seq A exon
GTATGTGGCAGCGGGTGGTAATATCCCAGACCAAGCTGAACCTAGGAACACCACAGTAGCTGGAGCCGCCCTTGAGTTGACTGACAACTGTCAGGAGTGGCAAGGGGCTGGGTAGAGAGAATTCCTGTGTTACTGCCAGTTCCAAGCGGTCATGCTCTGTGCATGTGTGAGGCCCTGGTCACAGCTCTCTTTTGTGGATTGGCCCCACCTCTGCCCTGTCATTTGCTCAGGTGGACAGCATGGTGGCGGGTGGCCCTGGGGATGCGCAGAGAAAGCCTGTGTCTTTCCCCAGAGATATAGCGAGGTCCTTGCGCTGCAGCACCGGGCCAGGTATACAGAAGTGGGGACTGGTGTTCCAGCTGCCCTGGCTGAGCCACATTCCCTTTGTCCTCTTGCTGCCAG
Seq C2 exon
GGAGTTTGAGCCCTTGCTGAAGCTGCATGTGGCTGTGAAGAAGGTTCCGTACGTGGATGAGGAGGGAAATCTGGTAAAGCCGCTAAGACCGAATGGGATAAAGATGGAGAAGTTTGTGTTTGATGTGCTCCCGTTTGCTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012960:ENSRNOT00000017373:5
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(16.8=100)
A:
NA
C2:
PF0170413=UDPGP=FE(12.3=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:
TCGTGGAGAAAGCGTACCCAG
R:
TTAGCAAACGGGAGCACATCA
Band lengths:
334-736
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]