DreINT0045411 @ danRer10
Intron Retention
Gene
ENSDARG00000079049 | cercam
Description
cerebral endothelial cell adhesion molecule [Source:ZFIN;Acc:ZDB-GENE-030131-9787]
Coordinates
chr10:10405946-10406203:+
Coord C1 exon
chr10:10405946-10406022
Coord A exon
chr10:10406023-10406096
Coord C2 exon
chr10:10406097-10406203
Length
74 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAG
5' ss Score
8.27
3' ss Seq
CACATGTTTGTTCTTTTCAGATT
3' ss Score
10.41
Exon sequences
Seq C1 exon
TTCATGGACCCCCAATGTACGTCTCTCGCTACGTCCACGTTCCTCCCAAACAGTCAGATCTCATGGGTTTCGATGAG
Seq A exon
GTAAAGTTTGCGATTTCAGCACGTGTTTCACTGCGTAGCATCACTGCATTTTAGCACATGTTTGTTCTTTTCAG
Seq C2 exon
ATTTACTTGATAAACCTGCGCAGACGTCAAGACCGCCGGGACAGGATGTTATGGTCTCTGTATGAGCTAGAGATTGATGCTAAAGTTGTGGATGCTATAGATGGAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079049:ENSDART00000109432:7
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=0.000
Domain overlap (PFAM):
C1:
PF0175512=Glyco_transf_25=PU(1.1=7.7)
A:
NA
C2:
PF0175512=Glyco_transf_25=FE(18.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGACCCCCAATGTACGTCTCT
R:
AGCATCCACAACTTTAGCATCA
Band lengths:
168-242
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]