HsaINT0041079 @ hg19
Intron Retention
Gene
ENSG00000088882 | CPXM1
Description
carboxypeptidase X (M14 family), member 1 [Source:HGNC Symbol;Acc:15771]
Coordinates
chr20:2778798-2779183:-
Coord C1 exon
chr20:2779074-2779183
Coord A exon
chr20:2778938-2779073
Coord C2 exon
chr20:2778798-2778937
Length
136 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
ACCATGTCCTGTGTCTGCAGTCA
3' ss Score
8.17
Exon sequences
Seq C1 exon
GCTGTCCTCCTTTGGGTCTGGAGTCCCTGCGAGTTTCAGATAGCCGGCTTGAGGCATCCAGCAGCCAGTCCTTTGGTCTTGGACCACACCGAGGACGGCTCAACATTCAG
Seq A exon
GTCAGTAATCCTGGCTCGGAGCCATGGTCTCAGGGTAGGGAAGGCAGCCCCTGGGAGCTTCTCTCCTGCCTCCTCTCTGTCCTGGCCTGCCCCACTCTGTCCAACTGGGCCTGACCACCATGTCCTGTGTCTGCAG
Seq C2 exon
TCAGGCCTGGAGGACGGCGATCTATATGATGGAGCCTGGTGTGCTGAGGAGCAGGACGCCGATCCATGGTTTCAGGTGGACGCTGGGCACCCCACCCGCTTCTCGGGTGTTATCACACAGGGCAGGAACTCTGTCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000088882-CPXM1:NM_001184699:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.757 A=NA C2=0.106
Domain overlap (PFAM):
C1:
PF0075420=F5_F8_type_C=PU(14.1=54.1)
A:
NA
C2:
PF0075420=F5_F8_type_C=FE(32.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTCCTCCTTTGGGTCTGGAG
R:
AGACAGAGTTCCTGCCCTGTG
Band lengths:
244-380
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)