BtaINT0127207 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000179 | RPUSD1
Description
Bos taurus RNA pseudouridylate synthase domain containing 1 (RPUSD1), mRNA. [Source:RefSeq mRNA;Acc:NM_001075874]
Coordinates
chr25:666948-667305:-
Coord C1 exon
chr25:667182-667305
Coord A exon
chr25:667051-667181
Coord C2 exon
chr25:666948-667050
Length
131 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGG
5' ss Score
9.68
3' ss Seq
TGTGACCCCCTGCCTGGCAGGTG
3' ss Score
9.45
Exon sequences
Seq C1 exon
GTTCTGCCACCAACTGGACTTCTCCACCAGCGGGGCACTCTGTGTGGCTTTGAACAAGGCAGCCGCAGGCAGTGCATACAGGTGCTTCAAGGACCGGCGAGTCACCAAGGCTTATCTGGCTCTG
Seq A exon
GTAAGGCCGGGCTGGTCCTTGGGGCAGGAGCCTCCGACCCTCCGTCCACTTTGGTAGGCTGTGGATGTCAGGTGGGCTTCCCAGCAGTGGCGGGTGACCCCATGAGCAGCATGTGACCCCCTGCCTGGCAG
Seq C2 exon
GTGCGGGGGCACGTCCAGGAGAGCCGAATGACCATCAGCTACGCCATCGGCAAGAACAGCACAGAAGGCCGGACCCACACCATGTGCATTGAAGGCACACAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000179:ENSBTAT00000000204:3
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=0.114
Domain overlap (PFAM):
C1:
PF0084917=PseudoU_synth_2=FE(24.7=100)
A:
NA
C2:
PF0084917=PseudoU_synth_2=FE(20.5=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:
GTTCTGCCACCAACTGGACTT
R:
CCTGTGTGCCTTCAATGCA
Band lengths:
227-358
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]