RnoINT0160920 @ rn6
Intron Retention
Gene
ENSRNOG00000004972 | Upp1
Description
uridine phosphorylase 1 [Source:RGD Symbol;Acc:1305566]
Coordinates
chr14:89328965-89331070:+
Coord C1 exon
chr14:89328965-89329123
Coord A exon
chr14:89329124-89330955
Coord C2 exon
chr14:89330956-89331070
Length
1832 bp
Sequences
Splice sites
5' ss Seq
AGCGTGAGT
5' ss Score
8.2
3' ss Seq
GCATTTCTCTCTGTTTTCAGCAT
3' ss Score
9.95
Exon sequences
Seq C1 exon
TTTGTGTGTGTTGGTGGAAGCTCCTCCCGGATGAGCGCCTTCATCAAGTATGTGGCCGCAGAGCTGGGCCTTGACCACCCAGGGAAAGAATATCCCAACATCTGCGCAGGCACTGACCGCTACGCCATGTATAAAGCCGGGCCCGTGCTGTCTGTGAGC
Seq A exon
GTGAGTACTTACTTGCCTTTCGCTGGGATGTGGTCTCCACGCTGTGCCCCACACGTTTGCATGTGGGAACAGCTGATCAGCTGGCGCCCTGACATTTGTTTACTGTAAATGGCTGGGAGCTTAGGGAACTTTCAGCAGTGGGGACCTGGGCGTGAGTAAGTCCTAGGCTCCAGCCTTGGAGGCTTAGTTTCCTGGAAAGCCTAGGTATACAAAAGCAGATACTCATGCAAATATGCTGTCCGCTCAGTGGGGGTGGGGGTGGCGGTTCCGGGGCGGGGCTTCCCTGCCAGGCTCCGGGCTATAAGAAGTGCTACATACCAGGTCTCTATGCCTCTTTTTTTATCTCACAGGGACTGACCTACTTTAGGACACAGGTTGATTGAGCAATAAAATCTCCAGTATCCTATTAATGAGGTGATTTTTTTCTAGCTCTGATTTTGATGGCAGCAATATTATATATGATATTATATTGGGGAGGAAAAGGTTTACTCACCTTACACGTCCACATTGCTGTTCCTCACCAAAGGAAGTCAGGACTGGAATTCAAGCAGGTCAGGAAACAGGAGCTGTTGCAGAGGCCATGGAGGGATGTTACTTACTGGCTTGCTTCCCCTGGCTTGCTCAGCTTCTCTCTTATAGGGACAGCCCAGAGATGGCACCACCCACAATAGGCTGGGCCCTCCCCGCTTGATCACTAATTGAGAAAAATGCCTTACAGCTGGGTCTCATGGAGGCATTTCCTCAACTGAAGGTCCTTTCTCTGTGATAATGCCAGCTTGTGTCAAGTTGACACACAAAACCAGCCAGTACTACACACACACACACACACACACACACACACACACACACACACACACACACACACACAATAGAAAACAATGATTTGATAAAATAGTGAAAAACTGAAGATCAGGAATGGATTCCCTTCCTGTTGAGATTTGTGTCTTGATTCTAGTCAGTTAAATATCCAAGTATATCGGTCATGTGGACTCATCTGATGACAAAGGCATCTTGTGGAAGCATTGTCTGCGTGTGACATTCTGGAAGGGGTCCTTTGGCAATAAGGTTCTTCCATAAGGGCACAGCGGCTCAGGGAGGGGATGGTGTGTTAGGTGTGGTGTGGGAGGGTCGTTGGAAGGCATGTGGAGTGGGGTCGCATTGCAGAGTCAGGGAGGAAATGAAGGAGACAGAAGTACAGTCCATAGATTATCTGATGACAAGGACTGAGGAACCAGACAGGTATCTTGTTTTGCTAAACTGGAGAGGGCAGGTGAAAAGGTCAGTAGGGAAGCCTTATCCGGTATGGTGGCCTGTGTACATGGCTTCAACGATCAGGAAGAAAGTAGCTACTTCCTGCTGGTACTACGTAGGTTGTATGAGTCAAAGGAGGTACGTATAAGACAGCTCTGCTTCTGTCTTGAAGTCTGTCTTCATTCCCATGATTTATTTAGTCGAAGTGCACCGCATAAAACATACAGCAGTCTCCTTCCCCACATGGGCTTTGTTCCAAAGACCCCAGTGGAGGCCTCGAAGCAGGAGGGTATCAAAACCGATAAATAGGAATATTCCTTTTATAGACACAAACCTCTGGTGCCTTGTACGGTGTGCGTTAGGTATAGCGAAAGGTACAGCCGTAATGACTAATAAAGCAGACTCATTTTAACTGTAATATAGTAAAATGTATGTGAATGTTCCCTCGAAATCTCATCCGTGCAAAGCTTAGTTGATCTTGGGTGGCTTGGAATGCAGTGCCCATTGTTTGGAGGGATTTCTGCGTGCATTGACAAGAGAGCAGCATTGGGCTCAGCCTCAGCATTTCTCTCTGTTTTCAG
Seq C2 exon
CATGGCATGGGCATCCCTTCCATTGGGATCATGTTGCATGAGCTCATCAAGATGCTGTACCATGCCAGGTGCTCCAACATCACCATCATCCGCATTGGCACTTCAGGAGGGATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004972:ENSRNOT00000006765:5
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:
PF0104815=PNP_UDP_1=FE(20.7=100)
A:
NA
C2:
PF0104815=PNP_UDP_1=FE(15.1=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:
TGTGTGTGTTGGTGGAAGCTC
R:
ATCCCTCCTGAAGTGCCAATG
Band lengths:
270-2102
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]