RnoINT0034834 @ rn6
Intron Retention
Gene
ENSRNOG00000026604 | Cercam
Description
cerebral endothelial cell adhesion molecule [Source:RGD Symbol;Acc:1304778]
Coordinates
chr3:8438156-8438629:+
Coord C1 exon
chr3:8438156-8438275
Coord A exon
chr3:8438276-8438552
Coord C2 exon
chr3:8438553-8438629
Length
277 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGG
5' ss Score
7.65
3' ss Seq
GTTGTTGTTTCCTTTTGCAGTGG
3' ss Score
9.1
Exon sequences
Seq C1 exon
GGGTCTCAGTGCACGTGTGCAACGACCATCGTTACGGATACATGAATGTAGGCGTGAAACCCCACCAGGGGCTGGAGGAAGAGAAGACCAACTTTATCCACCTGATTTTGGAAGCACTAG
Seq A exon
GTGAGGGCCGAGGTTTCCTGTCTTCCCACAATGCTCCGTTCCTAGGCATAGACTTAAGCACATTTGGGTGCCAGCCTTGGTCTGAACTATGGCAACGAGCAAGCCCTTTCCTCAGTGTTCTGATCTATACAGTGGGACAGGAGCTCAGGGAGCCTGTCCTGCCAGGTGTCCTGCTGGAGCCATAGTCATGAAGCTGAGGCTGGACCCCAGGGGTCTGTGACCAGGGGTCAGTAAGGACTCATGCCTGGGGCTTGGGGGTTGTTGTTTCCTTTTGCAG
Seq C2 exon
TGGACGGGCCCCCCATGATGGCCTCAGCTCATGTATCTCGGCCCCCAAAGAAGCCCAGCAAAATGGGGTTTGATGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000026604:ENSRNOT00000060969:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.192
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0175512=Glyco_transf_25=PU(1.1=7.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGTCTCAGTGCACGTGTG
R:
TCATCAAACCCCATTTTGCTGG
Band lengths:
196-473
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]