HsaINT0040550 @ hg19
Intron Retention
Gene
ENSG00000160111 | CPAMD8
Description
C3 and PZP-like, alpha-2-macroglobulin domain containing 8 [Source:HGNC Symbol;Acc:23228]
Coordinates
chr19:17007267-17008612:-
Coord C1 exon
chr19:17008502-17008612
Coord A exon
chr19:17007477-17008501
Coord C2 exon
chr19:17007267-17007476
Length
1025 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
GAGCCTGCCTCGTCCCCCAGGCT
3' ss Score
7.3
Exon sequences
Seq C1 exon
CCTTCGAGGCCACTCGCTTCTACAACGTCAGCACCCACAGCCCACTCGCCCGGGAACTGTGCGCCGGACCCGCGTGCAACGAAGTGGAGCGCGCCCCTGCCCGGGGCCCGG
Seq A exon
GTGAGTGCGCGGAGCCACTGCCGCCCCCCACCGCGGCCTGCCACACCCCGACTCCCACCCTCGGACGCCAGGGAGGGCTCCCCTGGGGGCTTGGCAGAGGAGGGGCCAACGTAAAGTCAGGAGAACGCAGCATAGAGGTGGGCGGGCGCTCTGCCTGTACGGGGGAGGCGGGGCTGGAGGAGCGGTCAGCGGGGAGGGGCGTGGCTGGGGGAGTGGTAAGTGCGGAAGGGAAGTGGCTGGGGAATGGTCAGTATACTGGGGGCAGGGCCGAGCCAGTGAGGGTGTGGTCACTGTGGTGGGGACTGGGCGCAATGGGTTGAGGGTGGTCAGTGTGGTGAGGGCGGGGTCGAGCGGCGAGGGGGAGGTGAGTGCGGAGGGTGCGGGGTTGAGGGCGGGTGTGTTCAGTGCGGGGGGCGGGGCCGAACGGGGTGGGTGTGGTCAGTGCGAAGGGGACGGGGTTGAGAGTGGATGTGGTTAGTGCTGAGGGGATGAGGTTGCGGTGGGTGTGGTCAGTGCGGGGGGCGGGGTCGAGGGTGGGTGCGGTCAGCGCTGAGGGGCGGGATTTGTGGTGGGTGTGGTCAGTGCGGAGGGGGCGGGGTTAAGAGTGGTCAGGACGGAGGGGGCGGGGTTGAGGGTAGGTGTGGTCACCGCGGAGGGGGCGGGGTTGAGGATAGGAGCGGTCAGTGCGGTGGGGGTGGGGTTGGGGTGGGTGTGGTCAGTGCGGAGGAGGCGCGGCAGGGGACGGGGCTGTTGTTGCAGGGCGGCCCAGACAGGACGCCCTGTCTCCTTTCTCTCCTACAACCGCTTTTTAAAAGTCTGTTTCTGTTTTTGTAAGTATTAGGCAAATACCTGCGTGAAATTCCATAAGGCCAGGGCTCAGGACCTCCCATTAACTGTCGCGCCCCAAGACCCACCGAGGGGGTAGTGGGCCCGGGACCCAGGGACATCTTCCCCACCCCCAGGTTCTGTGGGGGCGCGGGCAAGGTTCAGGGTGGGGGGTCTGTCGAGCCTGCCTCGTCCCCCAG
Seq C2 exon
GCTGGTTCCCCGGCGAGTCGGGCCCTGCCGTGGCCCCTGAGGAGGGGGCGGCGATCGCGCGATGCGGCTGCGACCACGACTGCGGCGCCCAGGGGAACCCGGTGTGCGGCTCCGACGGGGTGGTCTACGCCAGCGCCTGCCGCCTGCGGGAGGCCGCCTGCCGCCAGGCCGCGCCCCTGGAGCCCGCGCCTCCCAGCTGCTGCGCCCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160111-CPAMD8:NM_015692:39
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.044 A=NA C2=0.118
Domain overlap (PFAM):
C1:
PF076779=A2M_recep=PD(10.3=18.9)
A:
NA
C2:
PF0764810=Kazal_2=WD(100=57.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGCCACTCGCTTCTACAAC
R:
CTGGCGTAGACCACCCCG
Band lengths:
239-1264
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)