BtaINT0157888 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008428 | UPP1
Description
uridine phosphorylase 1 [Source:HGNC Symbol;Acc:HGNC:12576]
Coordinates
chr4:7528100-7529025:-
Coord C1 exon
chr4:7528879-7529025
Coord A exon
chr4:7528297-7528878
Coord C2 exon
chr4:7528100-7528296
Length
582 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGA
5' ss Score
4.3
3' ss Seq
CTGGCGTTTGCTCCCTGCAGCGG
3' ss Score
8.8
Exon sequences
Seq C1 exon
GGCAAGGCCGCCTGGACGGGGCGCTCTGCTCCTACACTGAAAAGGACAAGCAGGAGTACCTGCGGGCAGCCTACGCGGCCGGCATCCGCAACATTGAGATGGAGGCGTCGGTCTTTGCTGCCATGTGCAACGCCTGTGGCCTCCGAG
Seq A exon
GTGGGATCCCTAGGCCGCCCTCCCCCACGCTGAACCCCCTGCTTCTCCCCCCTCGTCACGCAAGTCCTTCCGGGGATTACCCGCCCACCCTGCCCCCAAGGCATGCCTCGGGGCCGAGTGCAGAGCGCACCTCTGTGCTCTTCAGATTGACACACGCTGCAAAGCAGGATCCGCAGTGTCTCTGCTGGACTCAGGTGCCACTGAGGAACCAGAAAGATGAGAAAGCTGCCCCCTCTGCTCAGGGCGGGCTTCGCTGCCAACTGTCCAGTGAATCTGGCCCTCAGAGCTCCTGGGATTTCTGAGTTGTAGTTCCTGGCCTCAGCCCTCCAGCCCAGCTCTGCTTCCAGAAATCCTGCCATCCCTGTTGTCTCATCACCCGGCCTTTCAAGGCAGTACAGGGGCCCAAGCTAGTCCTGAGGTTCGCTGAGGGAATCTCTTTGGGACGCAAAGGCAGCCGGAGCATGAGACAGTGGGACAGGATGCTCTGCATCCCACACCTTCTTGTGAGGAGTGGAGGCTGGTCTCCCGGGATTAAGCTAGAAATCCCCCTGTTTGTGCTGACCTGGCGTTTGCTCCCTGCAG
Seq C2 exon
CGGCCGTGGTGTGCGTCACCCTCCTCAACCGCCTGGAAGGAGACCAGATTAGCAGCCCCCACGAGGTGCTGGCCGAGTACCAGCAGCGGCCCCAGCGGCTAGTAGGCCAATTCATCAAGAAGCGCCTGATGCAGGCCTGATCCCCCAACATTTATCTAGAGGGCGTTTGTGGTTCCTGCAAATAAAATCATTGCCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008428:ENSBTAT00000011088:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.022
Domain overlap (PFAM):
C1:
PF0104815=PNP_UDP_1=FE(19.5=100)
A:
NA
C2:
PF0104815=PNP_UDP_1=PD(15.5=83.0)
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:
GGGCGCTCTGCTCCTACA
R:
GTGGCAATGATTTTATTTGCAGGA
Band lengths:
326-908
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]