HsaINT0040543 @ hg38
Intron Retention
Gene
ENSG00000160111 | CPAMD8
Description
C3 and PZP like, alpha-2-macroglobulin domain containing 8 [Source:HGNC Symbol;Acc:HGNC:23228]
Coordinates
chr19:16903702-16904362:-
Coord C1 exon
chr19:16904226-16904362
Coord A exon
chr19:16903858-16904225
Coord C2 exon
chr19:16903702-16903857
Length
368 bp
Sequences
Splice sites
5' ss Seq
CAGGCGAGC
5' ss Score
1.85
3' ss Seq
GTCTCCTCCTCCATCCCCAGGAC
3' ss Score
11.37
Exon sequences
Seq C1 exon
TGGTCTCGGCCGAGGTGGAAATGACAGCCTACGCCCTTCTGACCTACACTCTGCTGGGTGACGTGGCTGCCGCCCTGCCTGTGGTGAAGTGGCTGTCCCAGCAGCGAAATGCACTTGGGGGCTTCTCCTCCACTCAG
Seq A exon
GCGAGCCGGGCAGGGCCAGAGGGAGGGGCTCAGGGCTGGGTGGGTGGGGTCCCTGCAGTCCTTGTTTTGAGCTCTGAGGTGGCCAGGCAGTCTGGCCCCTTCTCACCTTATGGAGCCCCAAAGAGGGCAGGGGTTGGGGGTGAGGGACAGATGCCCCTGGATCCCCCATGGGAGCCCAGCCTCTGCCTCTGGGGACACACCAACCTGGCTGTCCTGAGGCCCCCAGTGCCATGGGTGTCTGCACTGGGTCCAGTCTCTATTCCAGCCCCGTTGGTGCCTGTTTTAGGCTAGGCTTCCAAGACGGGGTTCAGGGGACCACTGGCCAACTCAGTCTCAGGGTTGATGGCCGTCTCCTCCTCCATCCCCAG
Seq C2 exon
GACACCTGCGTGGCTCTGCAGGCCTTGGCTGAATATGCCATCTTGTCCTATGCTGGAGGCATCAACCTCACTGTCTCCCTGGCCTCCACCAACCTGGACTACCAGGAAACCTTCGAGCTGCACAGGACCAACCAGAAGGTTCTGCAGACAGCAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160111:ENST00000443236:32
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF076789=A2M_comp=FE(18.0=100)
A:
NA
C2:
PF076789=A2M_comp=PD(5.2=25.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTCGGCCGAGGTGGAAAT
R:
GCTGTCTGCAGAACCTTCT
Band lengths:
286-654
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