HsaINT0127490 @ hg19
Intron Retention
Gene
ENSG00000159266 | PLEKHM1P
Description
NA
Coordinates
chr17:62780959-62782842:-
Coord C1 exon
chr17:62782685-62782842
Coord A exon
chr17:62781486-62782684
Coord C2 exon
chr17:62780959-62781485
Length
1199 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGC
5' ss Score
9.37
3' ss Seq
GTGTGCTGCTCTCTCCCCAGGTG
3' ss Score
13.07
Exon sequences
Seq C1 exon
ATCGCAGATGAGGTATATGAAGGATTCCTCAAGGCCCTGATTGAATTTGCCTCCCAGCATGTCTACCACTGCGACCTGTGCACCCAGCGCAGCTTCATCTGCCAGATCTGCCAGCACCACGACATCATCTTCCCCTCTGAGTTTGACACCACAATCAG
Seq A exon
GTATGCGGGACACCCAGCCAGCTGCCTCCCAGCCCTACCCTTCGCCACACCCACAGCCTGGCCCAAGCACGCAGGGCAGCAGGCTTCGCTCTATGGGCAGGAATGTATTGAACATCTGCTTTGTGCCGTGCCAAGGGGCGGTGCAGTTGTTCAGGGCAGCCCACGCCCTGGGCAGTCATGGCCAGCTCTGGACCAGTTCAGGGGGCAAGACAAGCTCTCCCAGGACTCCTCTGCCTCTACAGAACCATCTGTCTTCCTAAAGAAGAGGTGGCTGCCGGCTCTCTGAGTGGAGCCTCCTGGGGTCTCAGTGTATGCATGGGTTGAGGAGGGTTGTATGAGTTACCGCCCTGCACTGTTGGCATAAGACCAGGCACAAAGTGGGCACCTGGTGGGTGGTAGCTGCCACTGCCACTGCTACTGCCTCGGTTGCTGAAATGATCCCTCTTGTTCCCAGTTATTGCTCATTATCAGCAACCTCTCAATGGAAAAATTCATCCAGACCTTCCTGCAACCCATGTGGGAGTGGAAAACTGAACTGGGAACATTAGTTCTTTTTTTATCGGTGTCCACTGGCCGGGATTCAGCCCTGAATGGGCCTGGGAGTGAGTTTTTAAAATTATACAGTCTTGGCCGGGTGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGAGTGAATCACTTCAGGTCAGGAGTTTGAGACCAGCCTGGCCAACATGGTGAAACCCCGTCTCCACTAAAAACACAAAAGTAAGCCAGGTGTGGTGGTGGGCACCTGTTATCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATTGCTTGAATCTGGGAGGCAGAGGTTGCAGTGAGCCTCACACCAGTCTGGGCAACAGAGCAAGGCTCTGTCTCAAAAATAAATAAATAAATAAGTAAATGCTTTTTAAAATACAGGTAAGAAATCTTTAATGAATCTCAAGCAGCATTTATAAAAAATGCAGTAGGACAGAGAATATCAGTGTGCATTGTGTGACGTATGGGTAAGCACTGTTTCGAGAATCTCCTGTTCCGGGATGGAAAGGCACAGCGTGCGTGCATGGGTTACACAGTATGTCACAGCCATATCGTGGGTTCTGGTCAAAAGTGCTGGCCAGCGTGGCCACAGGTCAACCTCCAGCCCAGCCGGCACCAGCAGGTGTGCTGCTCTCTCCCCAG
Seq C2 exon
GTGTGCCAAGTGCAAGACCGTCTTCCACCAGAGCTGCCAGGCTGTGGTGAAGAAGGGCTGCCCCCGCTGTGCTCGCTGACGCAAGTACCAGCAACAGAACGTTTTCGCCTGATGCCCCTCTGCTGATCCCACTCTGAAGGCCGGGGGTGAGTGTGGCTCAGCCATCCCAGCTGGGTTTCCTATCAGCCCAGGATACTCACCGTGTCACAGCTGTGTCCCCTTGTCAGGAAGACCTCAGATGTGACCAGAGCACTGGCCTCCTACAGAAAGCCCAGGAAGTCCCCATGATGTCCCCTGGCCCTCCCCCCACCCCTCTGCTGCAGGAGGCGTGGCCACCACCAGATGCTCCCTGTCTGGGGCAGGCAGGGCCGTTTACTCACCAGGCCCTGGCTCACCAGCGTCCCGGCGCCTCCGTTAGGGCTGGCCAAACACTGTGGAAAGGGGACTTGGGGAACATTTTCAATTCCACATTCCTGATTAAAAGGTCTGGTTTTTTAAGGTGGGTTTTTCCCATTCATATTTCAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000159266-PLEKHM1P:NR_024386:10
Average complexity
IR-S
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:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGTCTACCACTGCGACCTGT
R:
TGCTCTGGTCACATCTGAGGT
Band lengths:
352-1551
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
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)