HsaINT0033962 @ hg19
Intron Retention
Gene
ENSG00000167123 | CERCAM
Description
cerebral endothelial cell adhesion molecule [Source:HGNC Symbol;Acc:23723]
Coordinates
chr9:131191036-131191315:+
Coord C1 exon
chr9:131191036-131191112
Coord A exon
chr9:131191113-131191208
Coord C2 exon
chr9:131191209-131191315
Length
96 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGT
5' ss Score
11.08
3' ss Seq
CACCCCCCTGCCTCCTCCAGGTC
3' ss Score
11.19
Exon sequences
Seq C1 exon
TGGACGGCCCCCGCATGCAGGCCTCAGCTCATGTGACTCGGCCCTCTAAGAGGCCCAGCAAGATAGGGTTTGACGAG
Seq A exon
GTAAGTCCCCCAGCCTGTGGGCTCGCTGTTAGGAGGTGGATGGGCCCTCCTCTTCCGCTCCCTTGCACTTACCGCCCACCCCCCTGCCTCCTCCAG
Seq C2 exon
GTCTTTGTCATCAGCCTGGCTCGCAGGCCTGACCGTCGGGAACGCATGCTCGCCTCGCTCTGGGAGATGGAGATCTCTGGGAGGGTGGTGGACGCTGTGGATGGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000167123-CERCAM:NM_016174:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.154 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0175512=Glyco_transf_25=PU(1.1=7.7)
A:
NA
C2:
PF0175512=Glyco_transf_25=FE(18.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATGCAGGCCTCAGCTCATG
R:
CATCCACAGCGTCCACCAC
Band lengths:
167-263
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)