BtaINT0157887 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008428 | UPP1
Description
uridine phosphorylase 1 [Source:HGNC Symbol;Acc:HGNC:12576]
Coordinates
chr4:7528879-7529430:-
Coord C1 exon
chr4:7529221-7529430
Coord A exon
chr4:7529026-7529220
Coord C2 exon
chr4:7528879-7529025
Length
195 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGG
5' ss Score
7.13
3' ss Seq
AGTGCTCCACGGTTTTCCAGGGC
3' ss Score
7.22
Exon sequences
Seq C1 exon
GTCTGGAGCCCGGTTCAGTGGTCATCACCCGGCAGGCGGTGGACCCGTGCTTTAAGCCGGAGTTCGAGCAGATTGTCCTTGGGAAGCGAGAGGTCCGGAACACGGACCTGGACGAGCAGCTGGTGCAGGAGCTGGCGCGCTGCTCCGCGGAGCTCGGCGAGTTCCCCACAGTCGTGGGCAACACCATGTGCACCCTGGACTTCTATGAGG
Seq A exon
GTGAGGGGCGCTCTGGGCTCCTGCTGGGGGTTTGCCGCCGACGTGCGCTTGCTTCGCATAATCTCCACTGTGGGCCGGATGTTGGAGGGCAAGCAGGCCGGGCGGGCTCGAAACCACCTCTGAGTCTGGGGAGTGGGATGGGCGTGCAGTGGGTGTTTACTGCGTGCCCGTGCCGAGTGCTCCACGGTTTTCCAG
Seq C2 exon
GGCAAGGCCGCCTGGACGGGGCGCTCTGCTCCTACACTGAAAAGGACAAGCAGGAGTACCTGCGGGCAGCCTACGCGGCCGGCATCCGCAACATTGAGATGGAGGCGTCGGTCTTTGCTGCCATGTGCAACGCCTGTGGCCTCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008428:ENSBTAT00000011088:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0104815=PNP_UDP_1=FE(27.9=100)
A:
NA
C2:
PF0104815=PNP_UDP_1=FE(19.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGAGCAGATTGTCCTTGGGA
R:
CGACGCCTCCATCTCAATGTT
Band lengths:
257-452
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]