BtaINT0157884 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008428 | UPP1
Description
uridine phosphorylase 1 [Source:HGNC Symbol;Acc:HGNC:12576]
Coordinates
chr4:7532712-7534083:-
Coord C1 exon
chr4:7533969-7534083
Coord A exon
chr4:7532871-7533968
Coord C2 exon
chr4:7532712-7532870
Length
1098 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAA
5' ss Score
8.38
3' ss Seq
GTTCTGTTTTCTGTCTGCAGTTT
3' ss Score
9.41
Exon sequences
Seq C1 exon
TGACTTGGTGCAGCTTTGCAATCCCCACATAGCAGCAATGAAGGAAGACATCCTCTACCACTTCAGCCTCAGCACTAGCACGCACGATTTCCCAGCCATGTTTGGAGATGTGAAG
Seq A exon
GTAAAATGCTCAGGGCTTTCAATTCTTGGAATTTGTCCTAAGATCACTAATATTCTTAAAGCTTCATTGAGAGACTAGAAAAGAGCAGACATTAAATCTTTTCTAGGGGACTGAGGGATAACGAGGAGGAGCAGTCACCATGTCTGCTTGCTGTCTGTCATTTAAGATGCACATCGATTTGTTGAGCTGCTTCCTTCAATGACTTAACCTGCTGAATGCAGCTTCCAGGCTCCCCTCGTCCGGAGCCTGAAGTGCCTGGGTCCAGAATTGTCCTCATAGAGGACTTTTAAAGTGGACTAAAGTTTAGGATTCTAAACTGAAACAGGCCGCTGACCCTAGATCCAGGGCTGCCTCATGGGATCATAAGGTCATGACCAGGTTATGTCCCACTGGCCACCTGGTTCTTTCATGCTGTTTGTTTCAAACTGAGGGACGATTTTCCATTTTCATTCTTCCCTTAAATCTAACCTATAATTTTTTTCTAGACTGTAAAAGTTTTCTTTTTTATGTTTAGAGACTAATAATTCTTTGATCATTGAGTCCCTAGGAGTGACTTATTTGTTTTTCTTTTGTGAGCTTTCTTGTTTTGCACTTTGCAGACCGCAGGTTCTGTGTCTCTGAGATTTACCCGCTCCGTCCACAGCTACGACTCCCCAAGCCCCCACTGGCCCCTGACTCTTTCTCAAATTGGCCATTGGGTTCTCTGCCAGATGGATGCCCACACAGCTGCCGCCCACACAGACGGATGGACCCCGGGCTGGCGTGGAGCCTGGATTTAATCTGCCCAGCGAGGGCGAGGCTGTCCTGCATTTTGTGCGTCTGATTGCTTCACACTGTTGGGTCCAATAGCGATGAACTGAGTCCATGAACCAGTGCCTCTTACATCTGAAGGAATGCTGGAATCACCAGGGGGCCTCCACGGCACACAGATTACTGGCTCCCCATACACAGTGGGTCCGGGGTAGGCCAGGGAAGGGACCTGCACTTCTAGCAAGTTCCAGGAGATGCTGCTGCAGTGGGGGGTCCCACTTTGAGGACCCATGCTCCTCAGACGGGGTGCATTCCCTCTGCTGATGGGGTTCTGTTTTCTGTCTGCAG
Seq C2 exon
TTTGTGTGTGTTGGAGGAAGCCCTTCCCGGATGAAAGCCTTCATCAAGTACGTGGCCATGGAGCTGGGCTTTGCCCACCCGGGTGCTGACTATCCCAACATCTGTGAGGGCACTGACCGCTACGCCATGTTTAAAGTGGGCCCGGTGCTGTCGGTCAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008428:ENSBTAT00000011088:3
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:
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGACTTGGTGCAGCTTTGCA
R:
CACCGGGCCCACTTTAAACAT
Band lengths:
262-1360
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]