BtaINT0037021 @ bosTau6
Intron Retention
Gene
ENSBTAG00000038139 | CERCAM
Description
Bos taurus cerebral endothelial cell adhesion molecule (CERCAM), mRNA. [Source:RefSeq mRNA;Acc:NM_001102035]
Coordinates
chr11:99019928-99020304:+
Coord C1 exon
chr11:99019928-99020037
Coord A exon
chr11:99020038-99020186
Coord C2 exon
chr11:99020187-99020304
Length
149 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGG
5' ss Score
6.34
3' ss Seq
TAATCTCTTTACCACCTCAGGTC
3' ss Score
6.52
Exon sequences
Seq C1 exon
TGTGCCACGGACCACAATGTGGACAACACTACAGCGATGCTGCGGGAGTGGCTGGCTGCTGTGGGCGATAACTATGCAGCTGTGGTCTGGAGGCCCGAGGGGGAGCCCAG
Seq A exon
GTGTGGCCTGAGGGCAAAGGTTCTGGGGAAGATGGGCAACAGGTGCAGCCCAGAGAGGGAAAGGGACAGTTCCGAGTCACAGCCTCCAGGCCAGGGCTCTGACTACACGCGCCTCCCCCATGGAACATCTAATCTCTTTACCACCTCAG
Seq C2 exon
GTCCTACCCAGATGAAGAGGGCCCTAAGCACTGGACCAAAGAAAGGCATCAGTTCCTGATGGAGCTGAAACAGGAGGCGCTGACCTTTGCCAGGGACTGGGGGGCAGACTATATCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000038139:ENSBTAT00000004595:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.135 A=NA C2=0.225
Domain overlap (PFAM):
C1:
PF137041=Glyco_tranf_2_4=PU(38.3=97.3)
A:
NA
C2:
PF137041=Glyco_tranf_2_4=FE(41.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGCCACGGACCACAATG
R:
CCAGTCCCTGGCAAAGGTCAG
Band lengths:
210-359
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development