RnoINT0034829 @ rn6
Intron Retention
Gene
ENSRNOG00000026604 | Cercam
Description
cerebral endothelial cell adhesion molecule [Source:RGD Symbol;Acc:1304778]
Coordinates
chr3:8431920-8434117:+
Coord C1 exon
chr3:8431920-8432030
Coord A exon
chr3:8432031-8434006
Coord C2 exon
chr3:8434007-8434117
Length
1976 bp
Sequences
Splice sites
5' ss Seq
AGGGTAGGT
5' ss Score
8.1
3' ss Seq
ACTCTGTGTTGTGCTCACAGGGG
3' ss Score
9.19
Exon sequences
Seq C1 exon
GGCCAGAGCATGTGGAGGTGATGCGAGGTCATGGAAGCAGCCAGATCAACTGCACCCAATCCTCTTCACCAATCTGAGGCTTCCTCTCCAGCTCATCGCGTCATCTGCAGG
Seq A exon
GTAGGTGGAGTTACTGCCTGGGGCCGCCAGAGGGCGCCTCAAACGGAGCAGGGGGGCGGGAACAGGGCTCCCTGTAGTCTCCCGGGTCCACAGCTGAGGGTCAGGGAGCCCCGAATCCTGGGTGTCAGTATTCCAGGAGTGAGATGAATGCTCATGGTGCAAGCGATCCACCATGGCCCCCGGATACTCCCTTCTGTACCCACGGCTTTTGAGGTCCACACGGCGAAGGCGGACCCCAGGCCGCGTCTGGAGCAGGTGTCTGCCACTGGACATCTAGGGCCTGGGCGGAAAAGAGGACAGCAGCAGAGCGTACAGGAGCCCAAGAAGGGTGCAAGGGCCCCACTGTAGTAGTCACGCCCCTCTTAGACCCCGCCCCCATGCCCCGCCTGTCCCGCCCCCTCCCTGCTGAGGTGGGAGACCCGGGGCCCTCCACAGCCACGGAGTCCCGCCATGCGTATCGCACTGCTCCTACCTCTGCTGCTCCTGCTCCTGCTCCTGCTAGGGCCGCGGCTCCGGGCTGCCAGTGGCTCTGAGCCGACGCTACCCACCGTGGTCCTTGCCATCTTGGCCCGCAATGCTGAACACTCTCTGCCCCACTACCTGGGTGCGCTGGAGCGCCTGGACTACCCCCGGGCCAGGCTGGCCCTCTGGTGAGAGATCAGGGGTGGGTACATCTGGGCATCAAGCCCCAGGACCCAGGACGGCTATTGACCTGGAGGCCTCTTCCCTCCTGCCCAGACACTCTCTGGACAAGCTCCTCCCTCCCAGACTTGCCTCAAGCCCCTCAGCAGGATTCCTAAACCCCCGAGGGGCAAGAACAGACCTCTGAGGCCAGGGTACAGCCCAGGGACAACCACCACTCCTTTGGGCTCTCTACTCATCCTGGACTTCCTAGGCTTCCCGGGCTTCCCTTGGGTTTCAGTTAGGCCTGTCCTTTCTGACCCAGCCTTTGGGGCTAGCAGTACATCGCGGTGAAGACCTGTGGTCTGCCTGATGTGGCATAGAACAGACTGAACCTCTGAAATCCCCTGGGGCCCAGCATAGAAAGGACCAGTCAGACTGGAGGTTTCTAGAGAGCAGGTGGAAGGGAACCCTCAGCTCCAGGCAGCATGCTGAGCAGGGGTGTCAGGCTGAATCCCCTCCGGAGTGGTACTGCTAGCTTCTCTGGGTAGAGGGGCTGTCTGGTTCTCACAGCCAAGGGTGCGGTCTCATAGGACGCTAGGATCAGAGATTACAGCACCCTGTCTAAAAAAGCCAAAACAGGGAGGAGCCGGAGCAGAGGCTGGAGATAGACTACTCATAGCACACCAAAGTTGGGCTGGGGGTGGAGCTGTGGCCTGGGGAGGCTGCCCACAGTCACCACACTTGGGGAGTTAGTTAGTTCCCACCCCTGTAGGACTTGACACGTAGTTAGTCTTCACATCTGGGGAACTGGCTTAAAGGAACAGCATCCTCTAAAACCTGGGCTCTTGGCTAAGCCTTCCACCTCCATTACTAGAGCCCCTTCCCCAGCAGAGAGAAAGCTGTGTTCCATGGTAACAGAGCTTGGACCACCGGCACTTCTCAGGGGTGTTCAGAGCATGGAGTGATCCTAATTTCAGCTCAGGGTAATTAGGTAAGGAGAGAAGGGCAATGAGTGTTTTGTCTGATTCTGGGCTGGAAAGGGCCTGACTTGTGGAGCCATGGAGAGAGACAGAAGTGAGGGATCGTGGCAGGTGCAATCCTTAAGGTTAAGGGACTTTCCGTCTTTCCCAGTGCACACAGGCTGAGGATGTGGCTCAGTAGTCAGGGGCTTGCTTGGCATGTACAAATTTCTAGGTTCACAATACACTGCACAGAATTAGAAGGGAGGACGTGAAGTACAGAGAGTCGTGGACTGTGCCTGAGGTCACACAGCATACCCTCCAACACCTCCAGGGTAGCACACAACCCTCCTTCATTGCTCTCAGGACAGTCACTCTGTGTTGTGCTCACAG
Seq C2 exon
GGGTGCCACAGATCACAACGTGGACAACACCACAGGGATGCTCCAGGAATGGCTGGCTGCCGTGGGCCGGGACTATGCGACTGTGGTCTGGAAGTCTGAGGATGAGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000026604:ENSRNOT00000060969:2
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=0.079
Domain overlap (PFAM):
C1:
PF137041=Glyco_tranf_2_4=PU(15.2=44.7)
A:
NA
C2:
PF137041=Glyco_tranf_2_4=PU(28.4=92.0)
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:
GGCCAGAGCATGTGGAGGT
R:
CTGGCCTCATCCTCAGACTTC
Band lengths:
222-2198
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]