HsaINT0033955 @ hg19
Intron Retention
Gene
ENSG00000167123 | CERCAM
Description
cerebral endothelial cell adhesion molecule [Source:HGNC Symbol;Acc:23723]
Coordinates
chr9:131196689-131198184:+
Coord C1 exon
chr9:131196689-131196892
Coord A exon
chr9:131196893-131197931
Coord C2 exon
chr9:131197932-131198184
Length
1039 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGG
5' ss Score
5.85
3' ss Seq
GCTATCCTCTCACCTTACAGCGA
3' ss Score
9.58
Exon sequences
Seq C1 exon
CTACCTCGGACGGAAGCAGGTGAACCCTGAGAAGGAGACGGCCGTGGAGGGGCTGCCGGGCCTGGTGGTGGCTGGGTACTCCTACTGGACGCTGGCCTATGCCCTGCGTCTGGCGGGTGCCCGCAAGCTGCTGGCCTCACAGCCTCTGCGCCGCATGCTGCCCGTGGACGAGTTCCTGCCCATCATGTTCGACCAGCACCCCAA
Seq A exon
GTGAGGCTCTGATGGGGGCCGGGCATGGCAGGGCAGAGGCGTCCCCTCCAGGAACTCACCTCAGTCAGCAGGAAGTCCCCTCACCTGGCAGATGGGGAGACTGGGACTGGCAAGGCCAAGCCACTTGGCCCAGGTCACCAAGGAGTGGCTCAGCCTAGCCTTAGAGTCAGTCCATTCTCGGTGTGTACTTTGCACAGTGCATGCAGGCTTTTTTTTGAAATGGAGTCTTGCTCTGTTGCCCAGGCTAGAATGCAGTGGCATGATTTTGACTCACTGCACCTTCTGCCTCCCAGGTTCAAGCAATTCTGCTGCCTCAGCCTCCTGAGTAGCTGGGATTACAGGGAAGTGCCACCACACCCTGCTAATTTTTATTTATTTATTTATTTATTTATTTATTTTTGAGATGGAGTTTTGCACTGTCACCCAGTGCGGTGCAGTGGCGCAATCTTGGCTCACTGCAACCTCCGCCTCCCAGGTTCAACTGATTTTCCTGCCTCAGCCTCCTGAGTAGCTGGGATTACAGGTGCCTGCCACCACACCAAGCTAACTTTTTTGTATTTTTAGTAGAGACAGGGTTTCTCCATGTTGGCCAGGCTGGTGTCGAACTCCTTGACCTCAAGTGATCTGCCTGCCTGGGCCTCCCAAAGTGCCGGGATTACAGGCATGAGCCACTGTACCCAGCCTCAATTTTTGTGTTTTTAGTAGAGATGGGGTTTTGCCATGTTGGTCAGGCTAGTCTTGAACTCCCGACTTCAGGTGATCCGCCCGTCTCGGCTTCCCAAAGTGCTGGGATTATAGGCATGAGCCACTGCGCTCGGCTGCATGCAGTTTTTAATCAAATGACTTCCTTGTTCTCAGCCTCTGTTTCCTCATCTGGAAAATGGAGGTAGTAGAAGTCCCACTGCTCAGGGCCGCTGTGAGGACTAGATGGCGGGGAGTGAGGTGCTTTGGGCAGGCAAGGTGCCTGGCTCCGGGCAGGCATGTGTCCGGGGAGTAGGGGCCCGCCTCAATCCCCCTGAGCTATCCTCTCACCTTACAG
Seq C2 exon
CGAGCAGTACAAGGCACACTTCTGGCCACGGGACCTGGTGGCCTTCTCCGCCCAGCCCCTGCTCGCTGCCCCTACCCACTATGCCGGGGACGCCGAGTGGCTCAGTGACACGGAGACATCCTCTCCATGGGATGATGACAGCGGCCGCCTCATCAGCTGGAGCGGCTCCCAAAAGACCCTGCGCAGCCCCCGCCTGGACCTGACTGGCAGCAGCGGGCACAGCCTCCAACCCCAGCCCCGAGATGAGCTCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000167123-CERCAM:NM_016174:11
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=0.286
Domain overlap (PFAM):
C1:
PF0175512=Glyco_transf_25=PD(31.9=85.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTACCTCGGACGGAAGCAGG
R:
CGCTGTCATCATCCCATGGAG
Band lengths:
347-1386
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)