HsaINT0041075 @ hg19
Intron Retention
Gene
ENSG00000088882 | CPXM1
Description
carboxypeptidase X (M14 family), member 1 [Source:HGNC Symbol;Acc:15771]
Coordinates
chr20:2776467-2776807:-
Coord C1 exon
chr20:2776628-2776807
Coord A exon
chr20:2776543-2776627
Coord C2 exon
chr20:2776467-2776542
Length
85 bp
Sequences
Splice sites
5' ss Seq
ACCGTGAGT
5' ss Score
9.4
3' ss Seq
TCCTGACCTGCCCCATCCAGGTG
3' ss Score
8.1
Exon sequences
Seq C1 exon
GGTTCAGAGCTGGTGGGCTGGGCCGAGGGCCGCTGGAACAACCAGAGCATCGATCTTAACCATAATTTTGCTGACCTCAACACACCACTGTGGGAAGCACAGGACGATGGGAAGGTGCCCCACATCGTCCCCAACCATCACCTGCCATTGCCCACTTACTACACCCTGCCCAATGCCACC
Seq A exon
GTGAGTATTTTGAGGGCGGCAGTGGAGGTCTGTGGGGGGCGGACCTTGTCTCTGTCTCCTGCCCCTCCTGACCTGCCCCATCCAG
Seq C2 exon
GTGGCTCCTGAAACGCGGGCAGTAATCAAGTGGATGAAGCGGATCCCCTTTGTGCTAAGTGCCAACCTCCACGGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000088882-CPXM1:NM_001184699:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.017 A=NA C2=0.010
Domain overlap (PFAM):
C1:
PF0024619=Peptidase_M14=FE(19.1=100)
A:
NA
C2:
PF0024619=Peptidase_M14=FE(32.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGCTGACCTCAACACACCAC
R:
CACAAAGGGGATCCGCTTCAT
Band lengths:
167-252
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)