HsaINT0033958 @ hg19
Intron Retention
Gene
ENSG00000167123 | CERCAM
Description
cerebral endothelial cell adhesion molecule [Source:HGNC Symbol;Acc:23723]
Coordinates
chr9:131185425-131186551:+
Coord C1 exon
chr9:131185425-131185542
Coord A exon
chr9:131185543-131186416
Coord C2 exon
chr9:131186417-131186551
Length
874 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGG
5' ss Score
8.3
3' ss Seq
GTGACGTCCCCTCCTCAAAGTTT
3' ss Score
6.27
Exon sequences
Seq C1 exon
GTTCTACCCAGATGAAGAGGGTCCCAAGCACTGGACCAAAGAAAGGCACCAGTTTCTGATGGAGCTGAAGCAGGAAGCCCTCACCTTTGCCAGGAACTGGGGGGCCGACTATATCCTG
Seq A exon
GTGAGGAAGTCTGGCTAGAATCGGGCTTCTGAAAGGCGGTAGTATCCGTCCCTGATAGAAATCTGGGTATAGGCTGGGTGCAGTGGCTCACGCCTATAATCCTAGCACTTTGGGAGGCCAAGGCAGGTGGATCACCTGAGGTCAGAAGTTCGAGACCAGCCTGGCCAACATGGTGATACCCCATCTCTACTAAAAATACAATAATTAGCTGGGCGTGGTCGCAGGCGCCTGTAATTCCAGCTGCTTGGGAGGCTGAGGCATGAGAATGGCATGAACCTGGGAGGTAGAGGTTGCACTGAGCTGAAATCATGCCACTGCATTCCAGCCTGGGTGACAAGAGTGAAACTCAGTCTCAAAAAAAAAAAAAAAAGAAAAAGAAATCTGAATGTGACTGACCCACCCGAAGGCTGGATCCTTCGGCAGGCTATCTGGGCCAGAGCCCAGACCAGATGTTCAGATTGGATCCCTATGTTAAAAGCTCAGACTAGGTACTAAGCCTGGACCCCTCAGATAGATCCCGTTGTATACACTTTACTGAGCCTCGATTTCTGGGCTAGAGCCCAGGGTATAAATTGAGCCTGGATCTCTGAACTAGAGCTCAGAGTAGGTGTTTGGATCCATTTTCTAAGCCAGATCCCAGATAAAGGTCTTAGATCAGTAACTCAGGTATAATCTCTGGACCCAGTCCCTGAGTCAGTGCCCCAGACTAGAGCCTTGGTCCAGAAACAGATGTACTGAGTTTGTGAGACCTCTGTAAGAGCATTCCCACTGGATCCTAGGAGCCACGCTGGGTCTCTGGCAGGACCACTCAGTGAACTCCTTGGGGGGCTGCAGCCCAGGCAGGGCTGGAGCCTGTGACGTCCCCTCCTCAAAG
Seq C2 exon
TTTGCAGACACAGACAACATTCTGACCAACAATCAGACTCTGCGGCTTCTCATGGGGCAGGGGCTTCCAGTGGTGGCCCCAATGCTGGACTCCCAGACCTACTACTCCAACTTCTGGTGTGGGATCACCCCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000167123-CERCAM:NM_016174:3
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.108 A=NA C2=0.001
Domain overlap (PFAM):
C1:
PF137041=Glyco_tranf_2_4=FE(48.8=100)
A:
NA
C2:
PF137041=Glyco_tranf_2_4=PD(21.2=37.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCAGATGAAGAGGGTCCCAA
R:
GTGATCCCACACCAGAAGTTGG
Band lengths:
240-1114
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)