BtaINT0037029 @ bosTau6
Intron Retention
Gene
ENSBTAG00000038139 | CERCAM
Description
Bos taurus cerebral endothelial cell adhesion molecule (CERCAM), mRNA. [Source:RefSeq mRNA;Acc:NM_001102035]
Coordinates
chr11:99025341-99026652:+
Coord C1 exon
chr11:99025341-99025447
Coord A exon
chr11:99025448-99026519
Coord C2 exon
chr11:99026520-99026652
Length
1072 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGG
5' ss Score
9.35
3' ss Seq
TGTGACACCGTCTCCCTCAGGAT
3' ss Score
8.26
Exon sequences
Seq C1 exon
GTGTTTGTCATCAGCCTGGCCCGCCGGCCCGACCGCCGAGAGCGCATGCTGACTTCACTCTGGGAGATGGAGATCTCTGGGCGGGTGGTGGACGCTGTGGATGGCCG
Seq A exon
GTGAGGCTTCCGGGACGGGGACAGGGCCCTGTGCAGTGCAGGGGGCCCAGGGTGGCCCGTCGGGGCTCCCTGGGGGTGGGAAAAGCAGATGATGGGTTTAGTTTCCTGTTCCAAGGAGTATTCAAAGAGAGCCTGAGTCATTGTGTCTCGGGGAGCCCAGGGCAGACAGAACAGGACAGGGGCCTTTCCTCAGCCCACCTGAGGGAGGAGGGTGCAGTGGTTAAGGCCCGGGGTCTGGAGCTCCTGGGCCTGGTCACCAGCTGTGTGGCCTCCGGCAAGTCCTCCCATCTGTCAGCCCTGCTGCGGAAATGGCGAGGAGCTGCCTTCCTCTTAGGGGCTTATAAGGGTTTAGTGAAGATTTCTCCAGGCCCTGACACACTGTAAGTATCCCAGAGGTTAATGGGGTCTTCATTCTGATTATCAGGGCTCTTCCTTTCCCTCCTGAACCTAGATCTCTGATGGGTGGGGTGTGGGAGCAGGCCGCTCACGGCCCTCCATGTCCACCGCTGCTGGCTGCATGTGCTCGTCTGCTGGACCACGGGATGTCCAGCCTTTGCTTGGGCCCCTGCCTGAGAAGTGTCTGCCCTTCATCCTGGGTGTCTCCTCCTCAGACTGCCCGGCTCCCCTTAAGATGACCCACCCCACCCAAGGCAGCTCCAGCCCCCTGGTCCAGTCATGATGACTTCAGACCGCATGAGGCAGTAATCAGGCCTCCTCCCTCCCAACTGGGAATCTCTGGTAGTTCAGCAATAAAGAATCCGCCTGCAATACAGGAGACCGCTTGCAGTACATGAGTCTTGGGTTTGATCCCTGGGTCAGGAAGATCCCCTGGAGAAGGAAGTGGCAACCCACTCCATATTCTTGCCTGGGAAATCCCATGGACAGAGGAGCCTGGGCAAGCTACAGTCCAGGGGGTCGCCAAGAGTGGGACATAACTTAGCAACTAAGCCACCACCACCGCCACCTCCTTCAAACCAGACTCCAGTGTGACGGTCCCCAACTTGCCCAGTGCAGGCGGCCCTGGGTGGGTCTCTGGCGGGCACCCCTGACCCTGTGACACCGTCTCCCTCAG
Seq C2 exon
GATGCTCAATAGCAGTGTCATGAGGACCCTCGGCGTGGACCTGCTTCCCGGCTACCAGGACCCCTACTCGGGCCGCACGCTGACCAAGGGCGAGGTGGGCTGCTTCCTCAGCCACTACTCCATCTGGGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000038139:ENSBTAT00000004595:7
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=FE(18.9=100)
A:
NA
C2:
PF0175512=Glyco_transf_25=FE(23.8=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:
GTGTTTGTCATCAGCCTGGCC
R:
CCCAGATGGAGTAGTGGCTGA
Band lengths:
235-1307
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development