HsaINT0033954 @ hg19
Intron Retention
Gene
ENSG00000167123 | CERCAM
Description
cerebral endothelial cell adhesion molecule [Source:HGNC Symbol;Acc:23723]
Coordinates
chr9:131196381-131196892:+
Coord C1 exon
chr9:131196381-131196508
Coord A exon
chr9:131196509-131196688
Coord C2 exon
chr9:131196689-131196892
Length
180 bp
Sequences
Splice sites
5' ss Seq
GATGTAGGC
5' ss Score
2.52
3' ss Seq
CCCCTTGGTGTCACTTACAGCTA
3' ss Score
9.55
Exon sequences
Seq C1 exon
GTGGTTGCCAGGGGCCTGGCCCGGGTCCTGGTGTTTGAGGATGACGTGCGCTTTGAGAGCAACTTCAGGGGGCGGCTGGAGCGGCTGATGGAGGATGTGGAGGCAGAGAAACTGTCTTGGGACCTGAT
Seq A exon
GTAGGCAGCCTGCACCCTCAGGGACAAGGGGGCAGGGTGGGCCTCCGGAGTCTGCCTTTTCCTGCTTGGGACCCTGGCCGGCCCATCCCCTGAGAGCCTGGCCCTGTAGGAGCGGGTGTGGGAGGGTCCCATGACACCCAGGACCTAAGTGACTCCTGGGCCCCTTGGTGTCACTTACAG
Seq C2 exon
CTACCTCGGACGGAAGCAGGTGAACCCTGAGAAGGAGACGGCCGTGGAGGGGCTGCCGGGCCTGGTGGTGGCTGGGTACTCCTACTGGACGCTGGCCTATGCCCTGCGTCTGGCGGGTGCCCGCAAGCTGCTGGCCTCACAGCCTCTGCGCCGCATGCTGCCCGTGGACGAGTTCCTGCCCATCATGTTCGACCAGCACCCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000167123-CERCAM:NM_016174:10
Average complexity
IR-S
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:
PF0175512=Glyco_transf_25=FE(22.7=100)
A:
NA
C2:
PF0175512=Glyco_transf_25=PD(31.9=85.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATGGAGGATGTGGAGGCAGA
R:
GGTGCTGGTCGAACATGATGG
Band lengths:
242-422
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)