HsaINT0041083 @ hg19
Intron Retention
Gene
ENSG00000088882 | CPXM1
Description
carboxypeptidase X (M14 family), member 1 [Source:HGNC Symbol;Acc:15771]
Coordinates
chr20:2777173-2777740:-
Coord C1 exon
chr20:2777652-2777740
Coord A exon
chr20:2777297-2777651
Coord C2 exon
chr20:2777173-2777296
Length
355 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGA
5' ss Score
6.8
3' ss Seq
CGCTACACTCTGCCCACCAGCTG
3' ss Score
4.19
Exon sequences
Seq C1 exon
ACCCCAATGACCTATTCCTTGAGGCCCCTGCGTCGGGATCCTCTGACCCTCTAGACTTTCAGCATCACAATTACAAGGCCATGAGGAAG
Seq A exon
GTCAGATATAACCCCTATGACCTGGGAAGGAGGGCCCACCCATCTCAGGTCCCCTTCCCACCTTCCCACCGGGGCACAACCTGCTGTGACTGCGCTTGTATGCCCCTGCTGCCTCCTGATGTCTCAGCCTTCTCTCCTGTGGACCCCTAAGCTCCATCCCACTTTCCCTTATTATGGCGCCCCCCCAGTCCTACCCCTTCCTCCCGGCTCTGCTGCCGCTCCCCTCCTGTACCATGATGGGATGCCCCCTCTGTGTGGGCCATCGCTGACTTTTTAAGTCTTTCCATGGCACATGTGATCTGCCCCTGGGTGTACCCCTCCCATGCCTCATGCCACGCTACACTCTGCCCACCAG
Seq C2 exon
CTGATGAAGCAGGTACAAGAGCAATGCCCCAACATCACCCGCATCTACAGCATTGGGAAGAGCTACCAGGGCCTGAAGCTGTATGTGATGGAAATGTCGGACAAGCCTGGGGAGCATGAGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000088882-CPXM1:NM_001184699:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.065 A=NA C2=0.048
Domain overlap (PFAM):
C1:
PF0024619=Peptidase_M14=PU(0.6=6.7)
A:
NA
C2:
PF0024619=Peptidase_M14=FE(13.3=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:
CCCAATGACCTATTCCTTGAGGC
R:
TCATGCTCCCCAGGCTTGTC
Band lengths:
206-561
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)