DreINT0122758 @ danRer10
Intron Retention
Gene
ENSDARG00000098206 | ptrh1
Description
peptidyl-tRNA hydrolase 1 homolog (S. cerevisiae) [Source:ZFIN;Acc:ZDB-GENE-050306-33]
Coordinates
chr5:64402400-64403990:+
Coord C1 exon
chr5:64402400-64402445
Coord A exon
chr5:64402446-64402831
Coord C2 exon
chr5:64402832-64403990
Length
386 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGT
5' ss Score
9.11
3' ss Seq
CACACTGATTGTGCCCACAGGTG
3' ss Score
9.97
Exon sequences
Seq C1 exon
GGGTCACAATGGTGTTAGGTCATGCGTGGACTGCCTACAGACTGAT
Seq A exon
GTAAGTTAAATATTTAATCATATATTTTATATAATGTATCATCTGTTGTCATTAGCTGTATGTATGGAAAGAAAATAAGATTTAAAATTTGTTCCAAATTTCATATGAAATTATAGTAATTTAGAGATTTTTTTTAAATTTATCACAATAACAAATGTTTTTAGTCATTGTGATTAAAACAATAAAATGTTTGTATTATGTTGTCTAAAAATATACATATAAATTTTATGTATGCATTTATGCGTTAAATTTTAAGAATGAAGTCAAGTAAATAAATTTCTTATTGAGTAACTGAGATGATTTTAATGATGTAATTAGAAATGAATTTACATTTTTAAAGTAACTTACCCAACACTGAATACAACACACACTGATTGTGCCCACAG
Seq C2 exon
GTGATGCCGCGGTTGCGCATTGGCATTGGCCGACCGTCGGATAAAACGCCCATCGACCGCTATGTTTTGGGACGATTTTCAAAAGAGGAACAAAACGTTTTAGACTCCGTCATAAAGCAGAGTTTAGATGTGCTTCTGGATTATCTGACGGACTCGCGATCCCAGACTTCCCCAGCAGAGGGCAGGAGAGCAGCACAAAAGAAAAAAGCCAGGACACTTTCACCGCCTCAAAACAGCTCAGAAGAGCAAACGCAAAGCTGAGCTACTGACGCTGCACGTCGAGTGTTTGATGACTGAGTACTGGCATGTTTACAGTCAGGCAGAACAAAACCATTTCTGATAACTTTGTTAGGATCCACTGCACTTGCCGTATTGTAATGTTCAAGCGATAGTTCATCCAAAAATGAACCATTTATTTGTTTCAAACCTTCACGAGTTTCTTTGAACACAAAAGGAGATACTTTGAAGAAAGTTGGAACTTCCATAGTTAAAGGTATTGTTCTCTAAATAATGAACATACTGTCATTATTTACACTCTATTCACTTGTTCCAAACCTTCACAAGTGTCTTCTGTTGCACACAAAAGGAGATACTGTGAAGAAAGTTGGAACTTCCGTAGTTAAAGGGATAGTTCACCCAAATATGAACATTCTGTCATTATTTACTCCCCATTCACTTGTTCCAAACCTTCATGAGTTATTTCTGTTGAACACAAAAGGAGATATTTTGAAGAAAGGTGGAACATCCAGAGTTAAAGGTATTGTTCTCTAAATAATGAACATACTGTCATTATTTACACTCTATTCACTTGTTCCAAACCTTCACAAGTGTCTTCTGTTGCACACAAAAGGAGATACTGTGAAGAAAGTTGGAACTTCCGTAGTTAAAGGGATAGTTCACCCAAATATGAACATTCTGTCATTATTTACTCCCCATTCACTTGTTCCAAACCTTCATGAGTTATTTCTGTTGAACACAAAAGGAGATATTTTGAAGAAAGGTGGAACATCCAGAGTTAAAGGGGTAGTTTAATCTAAAATGAATATTCTGTCACCATTTATTCTCCATTCACTTGTTTCAAACCTTCACGAGTTTCTTCTGTTGAACACAGTAGATGCTTCGAAGAAAGTTGGAACTTCCGTTGTTAAAGGGATCGTTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000098206:ENSDART00000169209:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.062 A=NA C2=0.477
Domain overlap (PFAM):
C1:
PF0119514=Pept_tRNA_hydro=FE(8.2=100)
A:
NA
C2:
PF0119514=Pept_tRNA_hydro=PD(31.9=66.7)
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:
GGTGTTAGGTCATGCGTGGAC
R:
TGCCTGACTGTAAACATGCCA
Band lengths:
358-744
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]