BtaINT0120637 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012736 | PTRH1
Description
peptidyl-tRNA hydrolase 1 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:27039]
Coordinates
chr11:98407514-98408308:-
Coord C1 exon
chr11:98408089-98408308
Coord A exon
chr11:98407620-98408088
Coord C2 exon
chr11:98407514-98407619
Length
469 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGT
5' ss Score
10.75
3' ss Seq
CGGAGCCACTGTTTCCCTGGGCC
3' ss Score
-0.77
Exon sequences
Seq C1 exon
GTGGCAGGTCTGGGAAACCCTGGACTTCCTGGCACGCGGCACAGCGTGGGCATGGCAGTGCTGGGGCAGCTGGCGCGGCGGCTGGGGGTGGCGGAGAGCTGGGAACGCGACCGGCGCTGTGCCGCGGACCTCGCCCAGGCCTCACTCGGAGATGCCCAGCTGGTCCTGCTCCGGCCACGGAGGCTCATGAACCTCAACGGGCACAGTGTGGCCCAGGCGG
Seq A exon
GTAAGTTGAGGGCCCCATGTGTGTGCCACCCGGGAGGGTGGAGGGGCCCGGAGGGGGCATTCTGGACTGCAGCAAATCGGTTCACCTAGAGCTCCAGGTACCTGTTGAGCTCCAATTGCTGCCTGGCCTTGGGTGACTGAGAAATTGAGAATCTCAGTTTCTTTATATGTAGTGGTGGTTTAGTCGCTCGGTCATATCCAACTCTTTGAGATGCTATGGACTATAGCCCCCCAGGCTCCTCTGTCCATGGGATTCTCCAGGCTGGAATACTGGAGTGGGTTGCCATGCTCTTCTCCGGGGGCATTTTTCCCAACCCAGGGACTGAACCCGCGTCTCTTATGTCTCCTGCATTGGCAGGCGGGTTCTTTACCACCAAGTGGGGTTAATTGTGGCCTCTCCTCATGGGAGCCCAGAGTCAGGACAACCTTCCTGGGCAGATCAGTAGTAACCGGAGCCACTGTTTCCCTGG
Seq C2 exon
GCCAAGTGGAGCTGTTTGGACTGACTGCTGAGGAAGTTTACCTGGTACACGATGAGCTGGACAAGCCGCTGGGGAAAGTGGCTCTGAAGCTGGGAGGAAGCGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012736:ENSBTAT00000016930:2
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:
PF0119514=Pept_tRNA_hydro=FE(39.9=100)
A:
NA
C2:
PF0119514=Pept_tRNA_hydro=FE(19.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGCAGGTCTGGGAAAC
R:
CGCTTCCTCCCAGCTTCAGAG
Band lengths:
322-791
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development