DreINT0119140 @ danRer10
Intron Retention
Gene
ENSDARG00000104542 | ppt2
Description
palmitoyl-protein thioesterase 2 [Source:ZFIN;Acc:ZDB-GENE-010430-4]
Coordinates
chr19:19281024-19281388:-
Coord C1 exon
chr19:19281293-19281388
Coord A exon
chr19:19281132-19281292
Coord C2 exon
chr19:19281024-19281131
Length
161 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACC
5' ss Score
8.55
3' ss Seq
TTAATTTTGTCTGTTTGCAGACA
3' ss Score
10.3
Exon sequences
Seq C1 exon
GTGGCTTGGTATGTCGAGGAATTCTGTCCACTCTCCCAGACCATAATGTACACTCTTTTATATCTCTGTCTGCTCCACAGGCAGGACAGTATGGAG
Seq A exon
GTAACCCACTTTTTAGTTCTGCTGAGGAACACATTTAAAACATGCTGACCTAGTTAACCGTAGAATTGAATGTTTTTGTGTTATGTGAATATTTGGAAATATTTACTTTTACAGTTCTGCTTAAGTTTCTTTTTTTTTAAATTAATTTTGTCTGTTTGCAG
Seq C2 exon
ACACAGACTATTTGAAGTACCTGTTCCCTCAGTTTGTCAAATCCAACTTGTTTCATGTATGCTATACTGCAGTGGGCCAGAAAATATCAATCTGTAACTACTGGAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000104542:ENSDART00000158192:3
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:
PF0208910=Palm_thioest=FE(12.1=100)
A:
NA
C2:
PF0208910=Palm_thioest=FE(13.6=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:
GTGGCTTGGTATGTCGAGGAA
R:
GTTACAGATTGATATTTTCTGGCCCA
Band lengths:
194-355
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]