BtaINT0120636 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012736 | PTRH1
Description
peptidyl-tRNA hydrolase 1 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:27039]
Coordinates
chr11:98408089-98408784:-
Coord C1 exon
chr11:98408678-98408784
Coord A exon
chr11:98408309-98408677
Coord C2 exon
chr11:98408089-98408308
Length
369 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TTCCCTGATGTCGCCCGCAGGTG
3' ss Score
11.74
Exon sequences
Seq C1 exon
AACTGGGCAGCATGGGGCTCCCAGGCCTCTCGCGCGCCGGGCTGTGGCTGAGTCGAGCCATGAGCCGCTGTGTTTTGGAACCCCGGCCTGCGGGGAAGCGGTGGCTG
Seq A exon
GTGAGTGGATTGGGGGAAAAGCCCCGTAGGGACTCCTGGGCCCTAGCTCCAGTTCTGCCACAGTCTCCTGGGCAAAGTTCTCCCCCTTTCTTGAGTTTTCTTATCTAGAAATGGTCAGATGCTTCGATGGGCTCCAGACTTCCAGGAACTCCGCTCCTGCACCGGGGGGCCCTGCCCGCCCACACCGGGGGGCGCTTCCACTTGGCCTTCTGGAGTCTTGGAGTTTCTTGGATTCCTCCTCGTGGCCCTAACCCATTCCTGCAGTTTTCCATTTACCTTCCTCTGCTTTGGGGCCCCGGGCGGGGGCGCGCTGTGAGATAGATTATGGGGAGAGTTGTCGGGCCTCAGTTTCCCTGATGTCGCCCGCAG
Seq C2 exon
GTGGCAGGTCTGGGAAACCCTGGACTTCCTGGCACGCGGCACAGCGTGGGCATGGCAGTGCTGGGGCAGCTGGCGCGGCGGCTGGGGGTGGCGGAGAGCTGGGAACGCGACCGGCGCTGTGCCGCGGACCTCGCCCAGGCCTCACTCGGAGATGCCCAGCTGGTCCTGCTCCGGCCACGGAGGCTCATGAACCTCAACGGGCACAGTGTGGCCCAGGCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012736:ENSBTAT00000016930:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0119514=Pept_tRNA_hydro=PU(0.1=0.0)
A:
NA
C2:
PF0119514=Pept_tRNA_hydro=FE(39.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGTGGCTGAGTCGAGC
R:
CCACACTGTGCCCGTTGAG
Band lengths:
278-647
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development