RnoINT0034836 @ rn6
Intron Retention
Gene
ENSRNOG00000026604 | Cercam
Description
cerebral endothelial cell adhesion molecule [Source:RGD Symbol;Acc:1304778]
Coordinates
chr3:8438726-8440222:+
Coord C1 exon
chr3:8438726-8438832
Coord A exon
chr3:8438833-8440089
Coord C2 exon
chr3:8440090-8440222
Length
1257 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TGTATGCTTGTGTCTCATAGGAC
3' ss Score
8.5
Exon sequences
Seq C1 exon
GTCTTTGTCATCAGCCTGGCCCGCAGACCCCAGCGCCGGGCTCGAATGCTGAGCTCTCTCTGGGAGATGGAGATCTCTGCCCGGGTGGTAGATGCTGTGGATGGCAG
Seq A exon
GTGAGGCTCCCAGGGATGTGGCTTGGGGATCAGGACAGCCATCTTGGGATCCTCGGAGTGGACAAGCAGACCAGTTGAATAGCTTCCTATAGATCCAGGAGGTAGCCACATGGGACTTGAGTCCTGCTGTCTCAGGAATGCCAGAGCAGGCCAACAGGACAGGATGTCCTCCCTCAGCCCACCCCCAGGCCCTGGGTTGAGGGCTCTCACTGCCACTATGTAAACTCTGAGAAACCGCCCCATCTCTCAGCCTTACTTCTCCTTGGTACATAAGCATGCTCGGTGTCTGTGGTCCCTGAGAGTCTGGTGAAAAGTTATCCAGACCCAACTCCTGGCCAGGGGGAGGTGGCCTCAGGGAAGTTCTCCATGCTAGAGTTAGGTCCCTGAGGGACTGGAGTGTGGAGAGCATGGGGGGAAGTCTGTGTTCCACAGGGATTCAGTGGCCAAGCTACAACTGCTGCCAGTGTCACATGTCCCAGATGCCAGCTGCTGTTTGCTTCAAGCCCTATATAAAATATATTTTGAGATACACACACACACACACACACACACACACACACACACACACACACACACACATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATACACATATCAAACACTGTATCCTGCTGACCCACTGGTATCCCAGTGGTCCTTGCCTTGGTTTTGTTTTTTAAGACAGGTTCTCAGGTAGCTAAGTTTGTCTTTGGATTGGCTGTGTAAAAGAGAATGACCTTGAATTCCTGATCCTTCTGCTTCTGCCTCCCAAGAGCTAGGATTACACAGGTGCACCAGGGGTTGCTTTGTTCTGTCTGCCTCTTTCTTTCTTCCCTTCCTACCCTCTCAATACAGGGACTCACATAGCTCTGGAACTCACTATGTAGACTGGGCGGGCCCTCAGACTCCCAAAGATCTGCCTGCTTCTGCCTCCCAAGAGCTTGGATTATAAACCTGCACCATTATGGCTGCCTACCCTGCAGGGTATCTGTCCTTACTGGGCCTTGATTCAGAAAGTCTCTAACTTGTTGTCTGCTCATCCTGTGGTGCCTCCCTGTCCATCCTCCTGAGCCTTCTTTAAGGGGCCAGAGTTCTGTAAGCCCAGGCCACATGAAGGGGTTACAAAGCTGGGTCATCCTTTAAACCAGGCTCCTGTGTGATTCTCTTCAGCAGGCGAGGCCCCTCTGGTTGGTGCTTGTCACCCATGTATGCTTGTGTCTCATAG
Seq C2 exon
GACACTCAACAGCAGTATCCTCAAGCACCTTGGTGTGGACCTGCTCCCTGGCTACCAGGACCCCTACTCAGGCCGCACCCTGACCAAGGGTGAGGTGGGCTGCTTCCTCAGCCACTACTCCATCTGGGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000026604:ENSRNOT00000060969:9
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=0.000
Domain overlap (PFAM):
C1:
PF0175512=Glyco_transf_25=FE(18.9=100)
A:
NA
C2:
PF0175512=Glyco_transf_25=FE(23.8=100)
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:
GTCTTTGTCATCAGCCTGGCC
R:
CTTCCCAGATGGAGTAGTGGC
Band lengths:
238-1495
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]