RnoINT0034830 @ rn6
Intron Retention
Gene
ENSRNOG00000026604 | Cercam
Description
cerebral endothelial cell adhesion molecule [Source:RGD Symbol;Acc:1304778]
Coordinates
chr3:8434007-8434343:+
Coord C1 exon
chr3:8434007-8434117
Coord A exon
chr3:8434118-8434225
Coord C2 exon
chr3:8434226-8434343
Length
108 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGTT
5' ss Score
2.16
3' ss Seq
CTCTCGCCCCCCCCTTTCAGGTC
3' ss Score
13.3
Exon sequences
Seq C1 exon
GGGTGCCACAGATCACAACGTGGACAACACCACAGGGATGCTCCAGGAATGGCTGGCTGCCGTGGGCCGGGACTATGCGACTGTGGTCTGGAAGTCTGAGGATGAGGCCAG
Seq A exon
GTGGTTAACGGAGGGTGCTGGAGGATGGAGAACAGCCATTCCCCAGGGCACAGCCCCCAGAGGAGAAGCCCCTCTCTTATGAGAGTATCTCTCGCCCCCCCCTTTCAG
Seq C2 exon
GTCCTATCCAGATGAGCAGGGGCCCAAGCACTGGACCAGAGAAAGGCATCAGTTTTTGATGGAGCTGAAACAGGAAGCACTGGCTTTTGCCAGGGACTGGGGGGCTGACTACATCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000026604:ENSRNOT00000060969:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.079 A=NA C2=0.175
Domain overlap (PFAM):
C1:
PF137041=Glyco_tranf_2_4=PU(28.4=92.0)
A:
NA
C2:
PF137041=Glyco_tranf_2_4=FE(48.1=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:
GGTGCCACAGATCACAACGTG
R:
CCAGTCCCTGGCAAAAGCC
Band lengths:
210-318
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]