HsaINT0131197 @ hg19
Intron Retention
Gene
ENSG00000227600 | PPT2
Description
palmitoyl-protein thioesterase 2 [Source:HGNC Symbol;Acc:9326]
Coordinates
chr6:32121301-32122554:+
Coord C1 exon
chr6:32121301-32121413
Coord A exon
chr6:32121414-32122363
Coord C2 exon
chr6:32122364-32122554
Length
950 bp
Sequences
Splice sites
5' ss Seq
GTTGTAAGT
5' ss Score
8.3
3' ss Seq
CCTTATCACCCCTTTCTCAGGCG
3' ss Score
7.44
Exon sequences
Seq C1 exon
GAGTAGAGTAGGGCAGGAGAAACTGGGCCAGGCTGCACTTAGCTCAAGGGGCCTCGAGGACTCTCTGCGTCTCTGGAGACAAGGGCACTACACGCACTTCAGAATGAAGAGTT
Seq A exon
GTAAGTCGCTGACCTGGGGCGGACTGGAGGGTGGGGTGGGGTGGGTGTTGAGGGGCACGCCCGGGCTGGCATCAGCCCTCCAGGCCACCCTGCCACTCACCCAGCACACGGCAAAATGCAGAGGACTACCTTTCCCTGGTCCGCCCCCTGGCCGCCCCTTGGGGAATGCAAACTTCGTGTTCTGCTGCGGAGCCAGACGCCTGTATTGGGAAGTGGGGAGAATCAAGGCGGGGAAATCGGACTTTTGGGTCGCTGGGGGCAACGAAGCCTGGAGAGGCCTTCTTTCCATTCCCAGAATATGTTTGCTGCTTTTTCCTCTCCCCACTGGCCTAAATGGATCGCTCCGCCTGTTTCCTCCCCAGCACCTAGGGCGCAATGGAATATTCCATTGCCCCTCCTGTCCTGGGTCTGTGTTGCGGGGAACGCTCGCGCGGTTGCCAGAGAAAGCCCCGGACGTGACGGATTTGCGCGACCCCAAGCAGCCCGCCCTTCCCCCTCCCATCCGTCATTCCCCTGCGCTCTCTTTCCTCACCCTTCCCCCCGCCACCGTGGGTTCCAGACTTGGGATAAGTAAACAGCGGGTGGAGCGAGGCCTACGGACCCAGGCCAGGTGGGAGTCTGCACTCTTCAAGGGGCCTGGGCTGCTGCTCACGGGTATTAAAGAACTCCGCGTTGTTCATGGCTGAGGCGATGCATTAGGAAGATCCTGGACCTAGAGAACAAGTCCCCCGAACGCTGAGTTGGAGGCGGGACTTCGGGTGCGCGTTGGTGCGTCAACGTGGTGGGGGGGTGTGTTTGTAGGGAGAGGGCTGGAGTAAGTTAAAAGTAGGCTATTTTGTGACACGGACCTGGTGTGGGAGCGAGAGGAGGTGGCTTGATTGCCGGGCGTCTGTTCCGAGGGAGGAGGGTGTTGCCATCTCCCTCACATGCCCTTATCACCCCTTTCTCAG
Seq C2 exon
GCGGGAGCATGCTGGGGCTCTGCGGGCAGCGGCTCCCCGCGGCGTGGGTCCTGCTTCTGTTGCCTTTCCTGCCGCTGCTGCTGCTTGCAGCCCCCGCGCCCCACCGCGCGTCCTACAAGCCGGTCATCGTGGTGCATGGGCTCTTCGACAGCTCGTACAGCTTCCGCCACCTGCTGGAATACATCAATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000227600-PPT2:NM_138717:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTAGAGTAGGGCAGGAGAAACT
R:
TCATTGATGTATTCCAGCAGGTG
Band lengths:
302-1252
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)