DreINT0122755 @ danRer10
Intron Retention
Gene
ENSDARG00000098206 | ptrh1
Description
peptidyl-tRNA hydrolase 1 homolog (S. cerevisiae) [Source:ZFIN;Acc:ZDB-GENE-050306-33]
Coordinates
chr5:64398037-64400473:+
Coord C1 exon
chr5:64398037-64398294
Coord A exon
chr5:64398295-64400253
Coord C2 exon
chr5:64400254-64400473
Length
1959 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
3' ss Seq
TCCCATTGTTTGTGTTTCAGGTT
3' ss Score
11.64
Exon sequences
Seq C1 exon
GTCCATTCGACATGTGTCTGATGAAAGTCTCTTCGAAACTGTGTAACACACCGGTGTCTTCAACTTTAACCTTCATGATTCATAATGAGTAACACGATAGTGAAAAGCAAAGCCTGGGCTTTTGTGACACAAGTTTTTAATCTGCCTATGGCTCTTCTTCGGCGGATGATAACAAACCTGCTTAATCGAGTGATGATGATGAGCTCGCTCCCGCCACCCAAGATGGACAGTCAAGTTGATTGTAAGAAAAGGAAAATG
Seq A exon
GTAAGTCTTTTGTCATTATAACATCGTTATGACCAACTATTTTACCCAATTATTCTTAAAATTAGAGTTAAAGTTACTTGTGGTTGTTTTTGTAATACTTAATGTAGTAATGTAGTGTCTTTTTTAATTATTTAAACGTATTCATTAGTAGTTAAAGTAGTATTAGTCGTGAAAGTAGTTTTTCAATTCATAGTTTTTTTTCCATGGCAATTATAAGTCTCAAAATAAAGTCATTTAAGAGGACAAAAAGCCAGAACCCTTATAAAAATTATAGTAATTATAATGTTTTTGAGCTAAACTTTAGTAAAGTACTCAAGTTATTGTGGAAATACAAAAAATTTACAAAATAGCTTTTGAACAACTGTAACTACTACTGTATTTATTGATCATTAGTACTACAGTATGTTGTAGCGTTCATTAACGAAGTGTTGTAAATACAATAATGTATACAATAAATTTTACTATATTACATTTTACTATAGTACGTTCACAAATCCTATGGTATTTACTATAAATGAATATAGTGTAGTATGTTTTCATGTGGGAAATCCGGTTAAAAAGTCATAGTTGCAATTTGCAAAATATAAACTCTGAATTGAGAGAAAAATGTATCTATAACCTTTAATTAAATCATTAATTGTAGCATAAAAAGTCAAAATCGTGGGTTTAGAATTGAACTCTAAATCGAGAGAAAAACCTATCTTTAACCTTTAATTTTTTTAATAATAATTTTTAGAGGGATTTCACCTTCAATTTGGATAGGATAGTGGAGATTACAGACAGGAAAGTATTGGGAGCAGAGAGAGGGGAAGGGTTGGCAAAGGACCTCGAGCCAGCAATCGAACTTAGGTCGCCATGAGCACCATGTCGCTATATGTCGGTGCACTTAACCACTTGGCTATATTGGTGCCGACTATAACCTTTAACCAAATCATGAATTGCAAAAAAAGTCAAAATTGCTCAAAACTATTATCACATGTACATAATATAATGTACCAGTGGAACATTTATTATAAGTCGTTTTGAGGTTTACCAAAGATTTCAGGAAAAAAAAAAAACAGTTATGTGAGATAAATGCCTCTAAATCACAATCACAATCCCATAAACTCATAATTGCCAAATATAAACTCATAATTCAGATTTTTTAGAGTCTGAAATCTGAAAAAAGGCAGAATTGTATGATATAAAGTGGTTATTATATTAAGAAGTAATTGTTTGGGAGATAAAACAGAATCACCAAAATTAGTTTTCATGTTATACTGCGGTTTGGAAACGTCAAGGTTCTGAGACCATCAAAATTTTTTGCAATACCGTTCCAAGGGTATGTGTACGATTTTTTTTTTTTTTTAAGTTTTTTTTAGGACAACAGTATCTCCAGCAGAAAAGATGCCATCAATAATTAATTTAGCCTGACACGTTTACAGTTCCAAAATATTTAAAATGTTTCTCAAGTAAAATATATTATGTTCAAAAGGGAAAAAAGTTTTTGTTTTTTACCTAGACATTTAATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATTATAGTATTACTCACAATACTTGTGATACCCGTGAAACCGTGATATTTTTATCCAAGGTTATCAAACCGTCAGAATCTCATACCGACCCATGCCTAGATGATACTGCAAATTCCTTTCTTCTTATTAATATTATTTTTATTATTTTAACATTACAATTTACATTGTAATTTGTGTAACGTTTAAGTGACTAGATGACTTCACCATTATGACTAATTAAAAAATAAATCAACTACTACAATAAAAGATACAATAATGTCAGTTTAACAAGATAAAAATGCTAGGCTGATGATGTTTTTAGATTTTTTTTTTAAGTGTAGTTGAAACAGGACTTGTATAATCTTCTGACTGAATCCCATTGTTTGTGTTTCAG
Seq C2 exon
GTTGTTGGCCTGGGAAACCCTGGCATGACTGGCTCTCGACACAGTGTTGGTATGGCTGTTCTCACAACGTTAGCTGAACGCTTGGGTGCGCCAGATGGCTGGAGATCTGACCGAAAAGTGTCAGGAGAGGTCGTTGTAACACAACTGCAGGACGTTCAGCTGGTTCTTCTTCGACCCAAATTACTGATGAACGTCAATGGCGTGAGTGTGGCAAAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000098206:ENSDART00000169209:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.052 A=NA C2=0.020
Domain overlap (PFAM):
C1:
PF0119514=Pept_tRNA_hydro=PU(0.1=0.0)
A:
NA
C2:
PF0119514=Pept_tRNA_hydro=FE(76.0=100)
Main Inclusion Isoform:
NA
Other Inclusion 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:
GCCTGGGCTTTTGTGACACAA
R:
ACGCCATTGACGTTCATCAGT
Band lengths:
350-2309
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]