DreINT0119141 @ danRer10
Intron Retention
Gene
ENSDARG00000104542 | ppt2
Description
palmitoyl-protein thioesterase 2 [Source:ZFIN;Acc:ZDB-GENE-010430-4]
Coordinates
chr19:19279704-19281131:-
Coord C1 exon
chr19:19281024-19281131
Coord A exon
chr19:19279788-19281023
Coord C2 exon
chr19:19279704-19279787
Length
1236 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
TTTTATGTTTTTTTCTTTAGACC
3' ss Score
10.69
Exon sequences
Seq C1 exon
ACACAGACTATTTGAAGTACCTGTTCCCTCAGTTTGTCAAATCCAACTTGTTTCATGTATGCTATACTGCAGTGGGCCAGAAAATATCAATCTGTAACTACTGGAATG
Seq A exon
GTGAGTATGGATTGATCATGCATGTCATATTTAAAGTAAGAGAGAGAGAGAGATATTACTACAATTTGCAAATGCTTTGTCTGTTATTTTTCAAATTCTAATGAGTTTATGTAAATGGAATTTCACTTGCATTGGTTATACTTGGTGCTTTGAACAAAACAATAAAAAAGGCTAATAAATTGCTTGAATTATTAGTAATATGTATATTAATTATGCAGCACATTGTGCTTTTTGTCAGCAATTGTCAACATTTTCTTGCTGCTTGTGTTTCTGACCAGATATACCTTTTTGTGTTAATGTGCCTAATTAGTAGCAGTTTCTATTGGATGTTTCAATATTGAACTTTGCTGTCATACAATGGCTAAATTAGTACAATAATATCACAAGATTTTAACTGGTGGTGCATATATGGGTCTTGGTGCTGTGGACTATTTTTAGGCATTGCATAATATCATTGCGTCTCAAGTTCCTTGATTATTACTCTACTACTTGTATGACACCTATACTTTGTATACTTACTAACCTTATCTGCCTAGAAAATATAGCATATTTCATTTTCCGTTGGTCTTAGTACACAATGTAATTACAGAAGTGTCAAGTTTAAGTAAGAAAATTATTGGAAATTCTAGTTTGTTTTTGAGCAAGATGCTAATGGTCTAGTCTGATTCTAATTCTATATGTATTTACACTGTTTTTATGTATATTTTTGTTTTTATGGATAGCACTTTGGTACTCATTGCGGTTGTTTGAAACTACTTTAAAAATAAAGCTGACTTGAATACAATGATCTGCTAAGCATAAAAGCTTTAGCCACAGAGCGGTTGGCTACATGAATTCTGAAATGTCAAAACTAAACTAACTAAATTTCTTTTCATTACTTATTTTCTATCCATGTACAGCTTTGTGCATTTGCATTCTATGTGCACATTTCTGGTATATTTAATTCAACTGCTCTGGTCATTTCAGTGGTGCATATTGAACTGTAAATTAGAGCTGGGCGATTTAGCCTAAAATCTAAATCTCAAATAATTTAACATTTTAATAGTTTCCAGGTCACTATGTGTTGCTGGTGGAAGAAAACATTTCTTCACTCGCTCCTCCAAAATACCACAAAGTGGTTCAATAATATTTAGATCTGGTGACTGTGCAGGTCATAAGAGATATTTAACCTCACTTTCATGTTTAGCAAACCACTCTGTCAGAAGATACATGATGTTTTTATGTTTTTTTCTTTAG
Seq C2 exon
ACCCTCATCACAGAGACATGTACATCAACAGCAGTGACTATCTGGCCTTACTAAACAATGAAAGACCAAATCCCAACTCTACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104542:ENSDART00000158192:4
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:
PF0208910=Palm_thioest=FE(13.6=100)
A:
NA
C2:
PF0208910=Palm_thioest=FE(10.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGACTATTTGAAGTACCTGTTCCC
R:
CAGTAGAGTTGGGATTTGGTCT
Band lengths:
190-1426
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]