RnoINT0120794 @ rn6
Intron Retention
Gene
ENSRNOG00000049034 | Ptrh1
Description
peptidyl-tRNA hydrolase 1 homolog [Source:RGD Symbol;Acc:1310165]
Coordinates
chr3:11813140-11813466:+
Coord C1 exon
chr3:11813140-11813185
Coord A exon
chr3:11813186-11813283
Coord C2 exon
chr3:11813284-11813466
Length
98 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGT
5' ss Score
7.8
3' ss Seq
ATTCCCCTGGCACCCTACAGGCA
3' ss Score
6.37
Exon sequences
Seq C1 exon
GGGCCATAATGGAGTCCGTTCCTGCATTAGCTGTCTGAACTCCAAT
Seq A exon
GTGAGTCTACCCTTCTGCCCTGCCCTGGGTGGGGGTGGGCAGCATTGGGTCCCCACTGTATCTCACCAATGCACCCTCATTCCCCTGGCACCCTACAG
Seq C2 exon
GCAATGCCAAGGCTGCTGGTGGGCATCGGGCGCCCCACACACCCTAATATGGTGGAGACCCATGTTCTGGGCTGCTTCTCCCCGGAGGAGCAGGAACTACTGTCCCCATTGATGGATCAGGCCACTGACCTGCTCCTGGACCACATCCGTGCTCGAAGCCAGGGACCACTGTCAGGCCTCTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000049034:ENSRNOT00000039151:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.055
Domain overlap (PFAM):
C1:
PF0119514=Pept_tRNA_hydro=FE(8.4=100)
A:
NA
C2:
PF0119514=Pept_tRNA_hydro=PD(30.7=90.2)
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:
GGCCATAATGGAGTCCGTTCC
R:
CAGTGGCCTGATCCATCAATGG
Band lengths:
172-270
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]