RnoINT0116865 @ rn6
Intron Retention
Gene
ENSRNOG00000000435 | Ppt2
Description
palmitoyl-protein thioesterase 2 [Source:RGD Symbol;Acc:620375]
Coordinates
chr20:4381455-4382472:-
Coord C1 exon
chr20:4382418-4382472
Coord A exon
chr20:4382253-4382417
Coord C2 exon
chr20:4381455-4382252
Length
165 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGC
5' ss Score
8.8
3' ss Seq
CTCTCCCATGTTTCTTGAAGGTG
3' ss Score
8.07
Exon sequences
Seq C1 exon
CTTCTTTGGTTTCTATGATGCCAACGAGACGGTCTTGGAGATGGAGGAACAGCCG
Seq A exon
GTAAGCCCCTCCCATCTTGCTTTCTCTCTCCCTCTCCCATTTTCTCTATTTCATTCTGGCTCTGTCTGCCTCTGACTCAACTGAAGGGTATGCCTCATGGAGGAGGGAGGGGCTGGTGTGGACCCCAGCGGTGTCTCACTCCTGCCTCTCCCATGTTTCTTGAAG
Seq C2 exon
GTGTATCTTCGAGACTCTTTTGGGTTGAAGACTCTCTTGGCCCGGGGGGCCATAGTGAGATGCCCCATGGCTGGGGTCTCTCACACCACCTGGCACTCCAATCGCACGCTCTATGACGCTTGCATTGAGCCCTGGCTCTCCTGAAGACGTCCTCAGGGCTCTCCAGGAATTCCCCAGCCCAGAGATCAAGTGGTGGCCTTCTGGCGTGCCTGTGACCACCTCGTCGCTCCCACACTGCCCCACCTCCCCACCAGGGCTCCCAAACCCTCCCCTCTGCTCCTCTGTGAATGACAAGTCCTGGTCCCCTACCTCATGTCCTCACTTGGGGACGTCTCCATGCTCTCCCTTTCTGCCATGGCTGAGGTTGGGAAGCAAGCACCAGGTTTTTAACTGTGGCTTCACCGCTGCTGCTGTTGCTTCTCCGGGTCTGGCTGTACCGGAGGAGAACCCAGCCCCTGCCCACCTCAGGGGTCTTCCAGGCCACTCAGGACATTTTTAGCTTGTTATTCCCATGCCCCTCTTTTCTGTCCCTGTGGCCAGCCTCCCCACCGAGAGGGGCGCCCGTACAAGGGGGTTCTGAGGCTCCCCTATGGGGACAGTTCCACTTTTGAAGTGTCAGTGTTGGGGAATATCTGTGGCCTGCAAGGCCCATCTCAGGTTTGGGGATCCCCCAGTCCCTATGATCAGTGTTGGGGTATCCCCTGGGAGCCTAGGTTCTTTGAGGCCCCAGCCCCTCTTTTAACCACCCTTGAGTGGGTGGTCCCCGTATTTATAGAAATAAAAGTTCCATTTCCTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000435:ENSRNOT00000000497:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0208910=Palm_thioest=FE(6.6=100)
A:
NA
C2:
PF0208910=Palm_thioest=PD(16.6=93.8)
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:
GATGCCAACGAGACGGTCTTG
R:
CCAGAAGGCCACCACTTGATC
Band lengths:
243-408
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]