BtaINT0037030 @ bosTau6
Intron Retention
Gene
ENSBTAG00000038139 | CERCAM
Description
Bos taurus cerebral endothelial cell adhesion molecule (CERCAM), mRNA. [Source:RefSeq mRNA;Acc:NM_001102035]
Coordinates
chr11:99026520-99028067:+
Coord C1 exon
chr11:99026520-99026652
Coord A exon
chr11:99026653-99027939
Coord C2 exon
chr11:99027940-99028067
Length
1287 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
ACCCCCACCTTGTGCCTCAGGTC
3' ss Score
8.27
Exon sequences
Seq C1 exon
GATGCTCAATAGCAGTGTCATGAGGACCCTCGGCGTGGACCTGCTTCCCGGCTACCAGGACCCCTACTCGGGCCGCACGCTGACCAAGGGCGAGGTGGGCTGCTTCCTCAGCCACTACTCCATCTGGGAGGAG
Seq A exon
GTGAGGACCCTGCCCCCTCGGCCCACACCCTTGGGGAAAGCAGGGCACCCCCTCCCACTCATGGCTCCATGCCAGCACTCATGTAACTGGTGGGTGGCGGAGCATACTCATGAAGACCTGGGCGGCAGCTGTCAGCCTCCTGTGGGCGCGAGCCTTACTGTGCTGAGCCCGCGGTATGCACTGAGCGCCGGCTGTGTGCTGGGACGGCCTCTGCTCCAGGAACACAGAGGCGAACGCGAAGAATGCAGCCGCGCCCTCCTGGGGCAGAGGGACCAGAGCAGGGCGCACAAATGGAGAAAGAACTGTTTACCCTGGTCCAGGGAGGTACCGGCTGTGTGAGGGTGTGGACAGGCCTGGCCTCCTGGCCTCCGGTGGGGTCGGCGTGGGCCTCACTGTTGACGGGCAGGGAGAGGAGCCTTCTCAGCAGAGGAAGGCAGTGCAGGCCCAAACCCCTTGGCCAGGCAGCCTCGGCCTGAGGCTGGGGTGGGAGTGCCCAGGAGAGGTCACTGCTTGGACTTGGCCCGAGAGGACCAGGGACAGGACCTCCGAGGGGCGCCCTCTCCAGAAAGTGAAGCATAGACACCTTCCTTGTTTTCATTTTCTACTGTTGCTGAAATACGTTGCGTGTGAGTTGCTATTTCTATTTTTCTGAACTGAATGCTGCCTCTGAATGGATCGAAGGGTCACCATTTATTGAGCTGATTTCATGCTCTTCTCATACCTCCAAAAATTACAGAAAGCATTTTTTTCTCAGGGTGCTGGAGGGCTAGGGTCTCTCCCCAACCCCAGCCCAGCCTCACTTCTTTGAGGAGGTGGAAGTGAGGCTCAGGAGGCGGAAATGAAGAGCCCGGCTCTGTAACGCATCAGATGCAGGCTCAGATCCCAGCTCGGCCACGTCCGGGCTGGGTGTCCTTGGACTATCATGGGGTCACTTCCCGGTGTTTCTGTCTCTCTCCTGCCTCCTGAGGGTCCCTGGAGACAAGCCCTGTGGCCCCTGAGATGAGGCTGTGCTCAGGACTGCAGCAAGGGTTCTGATTTCTCTCCTGATCTGCTTGGAGGGCAAGACTGGGAGCCTGAAGGCCCTTGAATACTAGAGCCAGGTGTTGGGGTTTCAATCCCCAGGCCATGGGAAGCCCCAGCAGGCTTTGGAGCAGCTGAGCGACATAGCCAGGGCTGAGCACTTGGCCTGTAACTGAAGCCAGGAGTGTCTGTCAGTGTCAGCCAGGTGGGAGGGGACGACAGCCCAGGTCTAAAGAGCCACCCTCCCACCCCCACCTTGTGCCTCAG
Seq C2 exon
GTCGTCACCCGGGGCCTGGCCCAGGTCGTGGTATTTGAGGACGATGTACGCTTTGAGAGCAATTTCAAGGGGCGGCTGGAGCAGCTGATGGAGGAGGTGGAGGCGGAGAAACTTCCTTGGGACTTGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000038139:ENSBTAT00000004595:8
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(23.8=100)
A:
NA
C2:
PF0175512=Glyco_transf_25=FE(22.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCAATAGCAGTGTCATGAGGACC
R:
AAGTCCCAAGGAAGTTTCTCCG
Band lengths:
254-1541
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development