BtaINT0037022 @ bosTau6
Intron Retention
Gene
ENSBTAG00000038139 | CERCAM
Description
Bos taurus cerebral endothelial cell adhesion molecule (CERCAM), mRNA. [Source:RefSeq mRNA;Acc:NM_001102035]
Coordinates
chr11:99028251-99029086:+
Coord C1 exon
chr11:99028251-99028454
Coord A exon
chr11:99028455-99028833
Coord C2 exon
chr11:99028834-99029086
Length
379 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGC
5' ss Score
6.39
3' ss Seq
GCCCCCCTCCCCACTCCCAGTGA
3' ss Score
7.78
Exon sequences
Seq C1 exon
CTACCTCGGCCGGAAGCAGGTGAACCCCGAGGAGGAGGCAGTTGTGGAGGGGCTGCCGCACCTGGTGGCGGCCGGCTACTCCTACTGGACACTGGCATACGTCCTGAGCCTGGCGGGTGCCCGCAAGCTGCTGGCCTCCCAGCCGCTGCGCCGAATGCTGCCTGTGGATGAGTTCCTGCCCATCATGTTTGACCAGCACCCCAA
Seq A exon
GTGAGCTGCAGGGCAGGGTCAGCCCATCCTCAGAGCCCACCTCAGCAGGTAGTAAGTCCCCTCACTGGGCAGCTGGGGAGACTGAGGCTGGCAGGGCTGAGCCACTTCCGGTCACCAAGGAAGAGCCCAGCTTAGCCTTGGCATCGGCCCCACCTCTATGTGAATCCTGTGATGCCCTGTGGTTTCCAGGCAAGCGATTTTTCTATTCGGCACCTCAGTTTCCCCATCCGGAAAATGGGGATAAGAGAAATGCCACCTCAGGATTAGATGGGAAGGGCGGTCAGGTGCTTTGGGGGTGAGGTGCCTGGCTCCAGGCTGGCATGGGTCTGGGGTGGGACAGTTCACCCCAGCCCCCCTGAGCCCCCCTCCCCACTCCCAG
Seq C2 exon
TGAGCAGTACAAGGCACACTTCTGGCCACGGGACCTGCAGGCCTTCTCAGCCCGGCCCCTGCTCGCAGCCCCCACCCACTATGCGGGGGACTCCGAGTGGCTCAGCGACACCGAGACATCCTCGCCCTGGGACGATGACAGTGGCCGCCTCATCAGCTGGACTGGCTCCTACAAGACCCTGCGTGGCCCCCGCCTGGACCTGGCAGGCGGCAGCGGGCACAGCCTCCGTCCGCACCCCCGGGATGAGCTCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000038139:ENSBTAT00000004595:10
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=0.250
Domain overlap (PFAM):
C1:
PF0175512=Glyco_transf_25=PD(31.9=85.5)
A:
NA
C2:
NO
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:
AGGAGGCAGTTGTGGAGGG
R:
CCACGCAGGGTCTTGTAGGAG
Band lengths:
358-737
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development