BtaINT0157885 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008428 | UPP1
Description
uridine phosphorylase 1 [Source:HGNC Symbol;Acc:HGNC:12576]
Coordinates
chr4:7531611-7532870:-
Coord C1 exon
chr4:7532712-7532870
Coord A exon
chr4:7531726-7532711
Coord C2 exon
chr4:7531611-7531725
Length
986 bp
Sequences
Splice sites
5' ss Seq
AGCGTGAGT
5' ss Score
8.2
3' ss Seq
GTGTTTCTCCCTGGTTCTAGCAC
3' ss Score
8.8
Exon sequences
Seq C1 exon
TTTGTGTGTGTTGGAGGAAGCCCTTCCCGGATGAAAGCCTTCATCAAGTACGTGGCCATGGAGCTGGGCTTTGCCCACCCGGGTGCTGACTATCCCAACATCTGTGAGGGCACTGACCGCTACGCCATGTTTAAAGTGGGCCCGGTGCTGTCGGTCAGC
Seq A exon
GTGAGTACCTGCCCTGGCGGGAGGCCGGGGCTCCCGGCTCTGCAGGCTCCCCGCCTGCCCTGCACACAGCCCGGCAGGGGGGACAGGGGTGAGGGGAGCCTGGAGCTGGGGCCTGCCTTCAGGGCAGGCCAGGACACACATGGACACACATGGTGGTGCACGCCCACACAGCTGTGTGCACGCGGTGAGGACCCAGGGTGGAAACCAGGAGGACCTGCCTAGACCGGGGCCCCAGGGAGAGCCAGGACCGGGACCAGGTGGCCCCCGCCCTGGCCACCTCACAGGGACTTACATCACACATGTGTGATTCAGCAGTGAGTGAACACATATCTCTGGTGTTTCTCGGTTCCCGGTTCTGGTTTCCTTTGTAGGCAGGAACATTAAGCAAATGCTGCCATAGAGTAAGGCTGCCCAGAGGGTGCCCCTGCTCTGAGTAGCTGAGATGTTTGGCAGCTTCAACAACACTGCACACACCCAGGAATCAAGACGTGTTCAGATCTGGATACTAATAATCCATGGAAGCACTTCCCACATGCCAGACTCCATGACAAACACATCCTCCAAGGACTGCTCCACCTTGGATCAGCTCCTGGTGGCCGTGACTCCAGCAGACTTCTGAAGAAGGGCGAGGGTTGGGGGTGGAGAGGCAGCGGCCTTCATAGGGCGGAGCCACAGGCCAGCCATTGAGGATGGCTGTGGCAGAGCATGTGGAGAAAGGGGAAAATGTGTGCAGGGCTTCCCAGCCCAGAGGGGCTGCTCATTACCTGGCAACCGCAGGCTTCTGGTCCTCAGCTGAGATCCATTCTATGGTTGTGGTGCATCAGATGGGGTCATCCGTTCAACAGCATCATGCAAACCTTCCCCACATAGTCATAATTTTTAACTACGTTTTGAAGTTCATCTTCTTTACGACCACTTAGCAATGCACCACAGGGCACACAGAGACTCCACCGGAGCGTGACGCTAGTGTTTCTCCCTGGTTCTAG
Seq C2 exon
CACGGGATGGGCGTCCCCTCCATCGCTATCATGCTGCATGAGCTCATCAAGCTGCTGTACCATGCTCGCTGCTCCGGCGTCACCCTCATCCGCATTGGCACTTCCGGTGGGATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008428:ENSBTAT00000011088:4
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=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:
TTGTGTGTGTTGGAGGAAGCC
R:
TATCCCACCGGAAGTGCCAAT
Band lengths:
272-1258
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]