RnoINT0120793 @ rn6
Intron Retention
Gene
ENSRNOG00000049034 | Ptrh1
Description
peptidyl-tRNA hydrolase 1 homolog [Source:RGD Symbol;Acc:1310165]
Coordinates
chr3:11812873-11813185:+
Coord C1 exon
chr3:11812873-11812972
Coord A exon
chr3:11812973-11813139
Coord C2 exon
chr3:11813140-11813185
Length
167 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
CATATCCCCCCCCCCCCAAGGGG
3' ss Score
6.33
Exon sequences
Seq C1 exon
CGGAGCTGTTTGGGCTGAGTGCGGAGGAGATCTACCTGGTGCATGACGAACTGGACAAACCCTTGGGAAAGCTGGCTCTGAAGCTGGGGGGCAGCGCAAG
Seq A exon
GTGAGGCTGTCGTGTGCATAGATTTGGGTAGGGATGTTGACCTCTGTTGGGGTGGAGTAAGGTTGTTGAGCCTCTCTCTATAGGCTGGGCTGATCTGAAGGAGGTCTGGGCAAGAGAGTGCTGCCTCAGGAAGTACTAACTGCTCCTCATATCCCCCCCCCCCCAAG
Seq C2 exon
GGGCCATAATGGAGTCCGTTCCTGCATTAGCTGTCTGAACTCCAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000049034:ENSRNOT00000039151:3
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(18.4=100)
A:
NA
C2:
PF0119514=Pept_tRNA_hydro=FE(8.4=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:
CGGAGCTGTTTGGGCTGAG
R:
ATTGGAGTTCAGACAGCTAATGCA
Band lengths:
146-313
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]