BtaINT0127205 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000179 | RPUSD1
Description
Bos taurus RNA pseudouridylate synthase domain containing 1 (RPUSD1), mRNA. [Source:RefSeq mRNA;Acc:NM_001075874]
Coordinates
chr25:667381-668257:-
Coord C1 exon
chr25:668107-668257
Coord A exon
chr25:667568-668106
Coord C2 exon
chr25:667381-667567
Length
539 bp
Sequences
Splice sites
5' ss Seq
CAGGTCGAT
5' ss Score
1.71
3' ss Seq
GCACTTGCCCCGCATTGCAGCCA
3' ss Score
6.51
Exon sequences
Seq C1 exon
GGCTGAGACCGCAGGCCGGGCCCGGCCAGGCGCACCTCTGTGGCCTGAATTATTGCTCCGGTACCACTGGGCCACGAGGCGCGGGACGCGAGTTCGGGAACCAGGGACAGGTCGCGGCATCGGAAGCCCGGACGGCGCAGCCCAGCTGCAG
Seq A exon
GTCGATCCCGGAGTGGGCAGGGGCGCGGGAAGGATTTGCAGCGGGAGTCCACCGGGCACCCTTCCGCCGGTGTCCATGAGACGGGGGAGGCGAGAGTTCCGCGGAGAGGAGCCAGAGCAGGGGGCGTCTGCGTGGGCGAGAAAGGGCCCCGTCTCCTGCTCTGTACCCGCCCCACTCAGGAAAAGGCCAATATCACGTGTCTGTAGCCCGCCTCGGGAAGAATCCGTGGGAGCGGGCTGGAGGGCAGGACTGCTTATCCCCACAGGCCCGGGTCTGGGAAGGACCGCCCCACAGCCAGAACTCAGGGCACCACTAGCTTGCCCTCTCCTAGCCAGAGCCCCCAACCAGTAGACGCCCTGCTCATCCCACTCAGAGGTTGGGAGTGCAGGCACACAGTCGGTCTACAAGCTTGCCTGACAGCATCAGTGGCTTCAGACCGACGGCCCTGGGGAGCAGGGGTGTTCAGGCCAGGTGGGCAGGGCTCTGATGCGGGCTAGGCAGCCCATAACCCCGTTCCACGCACTTGCCCCGCATTGCAG
Seq C2 exon
CCACCATGGAGCCAGGCAGCGTGGAGAATCTGTGTGTCGTGTACCGGAGCCATGACTTCCTGGTGGTGAACAAGCACTGGGACGTACGCATCGACAGCAAAGCCTGGCGGGAGACGCTGACCCTCCAGAAGCAGCTGCGGCACCGCTTCCCAGAGCTGGCCGACCCCGACACCTACTACGGGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000179:ENSBTAT00000000204:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0084917=PseudoU_synth_2=PU(26.5=72.1)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCACCTCTGTGGCCTGAATTA
R:
TGAACCCGTAGTAGGTGTCGG
Band lengths:
306-845
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]