HsaINT0041078 @ hg19
Intron Retention
Gene
ENSG00000088882 | CPXM1
Description
carboxypeptidase X (M14 family), member 1 [Source:HGNC Symbol;Acc:15771]
Coordinates
chr20:2779074-2779539:-
Coord C1 exon
chr20:2779372-2779539
Coord A exon
chr20:2779184-2779371
Coord C2 exon
chr20:2779074-2779183
Length
188 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTT
5' ss Score
8.17
3' ss Seq
CTGTTCTATCCCCGCCCCAGGCT
3' ss Score
7.36
Exon sequences
Seq C1 exon
GGACCTCAGAACAGCATGTCCGGATTCGAGTCATCAAGAAGAAAAAGGTCATTATGAAGAAGCGGAAGAAGCTAACTCTAACTCGCCCCACCCCACTGGTGACTGCCGGGCCCCTTGTGACCCCCACTCCAGCAGGGACCCTCGACCCCGCTGAGAAACAAGAAACAG
Seq A exon
GTACTTCCTCTCCAGGGGCCCAGCCCAGACTTGCAGCCCCTGGGGCACTTTACCAGCACAGCTCTTGGCCTCATGGGCACCGGCACGCCCCTTGCTTGCCTAGCGCAGGAGCAACCTTAGGCTCAGCTTCCCACCTGCCCTGGCTACCCTCCCTCTGGTCCTGTCTCACTGTTCTATCCCCGCCCCAG
Seq C2 exon
GCTGTCCTCCTTTGGGTCTGGAGTCCCTGCGAGTTTCAGATAGCCGGCTTGAGGCATCCAGCAGCCAGTCCTTTGGTCTTGGACCACACCGAGGACGGCTCAACATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000088882-CPXM1:NM_001184699:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.667 A=NA C2=0.757
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0075420=F5_F8_type_C=PU(14.1=54.1)
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:
GACCTCAGAACAGCATGTCCG
R:
GTCCAAGACCAAAGGACTGGC
Band lengths:
251-439
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)