RnoINT0160919 @ rn6
Intron Retention
Gene
ENSRNOG00000004972 | Upp1
Description
uridine phosphorylase 1 [Source:RGD Symbol;Acc:1305566]
Coordinates
chr14:89327249-89329123:+
Coord C1 exon
chr14:89327249-89327369
Coord A exon
chr14:89327370-89328964
Coord C2 exon
chr14:89328965-89329123
Length
1595 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
CCCCCGTTCTCTGGTTGCAGTTT
3' ss Score
9.14
Exon sequences
Seq C1 exon
CAGTGACTGCCTCGTCCAGCTTTCAAATCCAAACATAGCCACGATGAAGGAAGACGTTCTCTACCATTTCAACCTCAGCACTAGCACACACGATTTCCCCGCTATGTTTGGAGATGTGAAG
Seq A exon
GTAAGAACTCCAGGCTTTGATTCTATGGACTGTCTTACAGTCAACTTCCTCCTTGATACAGCCGCACCGTCTCACTGCTGACAGGCAGGAGACAAGGACTTCATTATATCTTTTTTTTTTCCCCGGAGCTGAGGACCAAACCCAGGGCCTTGGGCTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACCCTGCGTTCTATCTTTATTAGACTTCTGCCAAGTGATATCTTGCGTTTGTATGAATTAGCAAGCAAAGGAGAGAACGAGTGTTAACAACTGCAGCGTCAGTTTCTGCTTTGTCTCCTGGGACTTCATTTGTAAGCAAATGTGTGTCAATCTCCTGAGCCGTACCATGGTCTACGCTTAGAGTTTCAAGTACTCCGAAGATGAAGGCAGGAGTTTGGAGGGGAAACCTAGACGATGTCTCGAGAGCTGTCCATTTCCCAACACTTAGTTGAGAAGAGGGAACTGGGAAGGTGTAGTCATTCTGGAGACTGTATGATGCCCGCCTGCAGCTGAGGGTGTATATTAATATTACTGTTTCTTAATTATCTGAGGGCCGATGTTGATGGAGACACTTCCAGCACAACGTCTTCAGTTCTCCGTGCTCATTTATCTTACATTTTTATAAAAGTCCTTCATTAACATTTGTTTCTAATCGACACCTAGCTGTGTGTGCATCCTTACAAGGAAAATTGTGAACTTCAGTTCGTGAATGTGATGTGAAGTGACAAGCAGGGTGGTTAGTCGGTTCACAACTCAGGAACTGATCCTTCTTTGGGTCAAGAACAATCAGAATCCTAGCTACTGGCTATTTTGCAATTTACATTTGATTGTTAACTCCAGTGAACAATATTATTAAAATAGCACTCATCATTGTCTAATCCTGATAATGACGAATTAACTCATGGAATTAAAAGCCAAGATGGGGTCGGAACCCCCATACTGGGCCCCGTCTGCCTCGGTAGAGCTCACTTTTGGTAGCAAATGGTGAGCAGCTTTCATGTTTGAAATGAAGATTCGTTCAATTTCCATTTATCCCAATATTGCTAATTTATGTCTTTATTTCCCGCTATGGACGTGCCCTTTCAGGTTTAGAGATGCATTTCTTTCTTTTATCTTCAGATCCCATTAAATCACTTTTTATTACTTACTATTCTTTGGCTAAATAAAAATCTCTTAGATGAGACTTTGCAAAATGAAGGTTTGACTTCTCCACCTACAAAGTCCCAACCCACCCCTGGGCTTCTATTCTCCAACTGTGGGGCTCTCCAGTCATTTTAGTCCAAACCCAAACTTCCTTCCAGCACACTAGGCTGCCTCTCACCTGTTATGTAAGACAGCAAGATTGTGGTCATTGTACGAGTGACACTGAGCTTTGTGTGCTTGTACTGAGCAGTGATCCCCGGATCAGTTCTATTAAAACTCATCGGGAAAGTGGATTCCTCAGTCCCCTCAGATACACCTGGTACAGGTCAGGCCAGAAAACTTGCTAGGAAGTTCCCAGAGGACCCCAAGGTTGCTGGTGAACTTCGCAGACCCCTGATGGCGCAGTGTCCTAACGGGGTCCCCCGTTCTCTGGTTGCAG
Seq C2 exon
TTTGTGTGTGTTGGTGGAAGCTCCTCCCGGATGAGCGCCTTCATCAAGTATGTGGCCGCAGAGCTGGGCCTTGACCACCCAGGGAAAGAATATCCCAACATCTGCGCAGGCACTGACCGCTACGCCATGTATAAAGCCGGGCCCGTGCTGTCTGTGAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004972:ENSRNOT00000006765:4
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:
PF0104815=PNP_UDP_1=PU(0.1=0.0)
A:
NA
C2:
PF0104815=PNP_UDP_1=FE(20.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGACTGCCTCGTCCAGCTTT
R:
GCTCACAGACAGCACGGG
Band lengths:
278-1873
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]