BtaINT0120638 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012736 | PTRH1
Description
peptidyl-tRNA hydrolase 1 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:27039]
Coordinates
chr11:98407326-98407619:-
Coord C1 exon
chr11:98407514-98407619
Coord A exon
chr11:98407372-98407513
Coord C2 exon
chr11:98407326-98407371
Length
142 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CCCCCTCCTATCCCTTGAAGGGG
3' ss Score
8.03
Exon sequences
Seq C1 exon
GCCAAGTGGAGCTGTTTGGACTGACTGCTGAGGAAGTTTACCTGGTACACGATGAGCTGGACAAGCCGCTGGGGAAAGTGGCTCTGAAGCTGGGAGGAAGCGCCAG
Seq A exon
GTGAGGCCCTGAACTGGTCAGGGTGGGATAGAGAAGCTGACCTCCAAGTGGGGGTAGAGGTGCCGACCCCAGGCTCGGCGGTGGATGGGGTGAAGGGTGCTGACCCAAGGAAGCACTAATTGCCCCCTCCTATCCCTTGAAG
Seq C2 exon
GGGCCACAATGGAGTCCGTTCCTGTATGAGCTGCCTCAACTCCAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012736:ENSBTAT00000016930:3
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=0.000
Domain overlap (PFAM):
C1:
PF0119514=Pept_tRNA_hydro=FE(19.1=100)
A:
NA
C2:
PF0119514=Pept_tRNA_hydro=FE(8.2=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:
CCAAGTGGAGCTGTTTGGACT
R:
AGTTGAGGCAGCTCATACAGGA
Band lengths:
146-288
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development