BtaINT0037025 @ bosTau6
Intron Retention
Gene
ENSBTAG00000038139 | CERCAM
Description
Bos taurus cerebral endothelial cell adhesion molecule (CERCAM), mRNA. [Source:RefSeq mRNA;Acc:NM_001102035]
Coordinates
chr11:99020994-99021470:+
Coord C1 exon
chr11:99020994-99021128
Coord A exon
chr11:99021129-99021265
Coord C2 exon
chr11:99021266-99021470
Length
137 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
CGGGGCCACGCCTTCCCCAGGGC
3' ss Score
7.02
Exon sequences
Seq C1 exon
TTTGCAGACACAGACAACATTCTGACCAACAACCAGACGCTGCGGCTTCTGATCGAGCCGGGGCTGCCCGTGGTGGCCCCGATGCTGGACTCTCAGACCTACTACTCCAATTTCTGGTGTGGAATCACCCCCCAG
Seq A exon
GTATGGCCGGGGACCCAGGCCTCGGGAGGCTTGAGGTCTGGGAGGAGGGACGTGGAGGGTAGCAAGCCCCAGCTGGGGAGCGGTGTGCTGGGGATGGAGAGGTGCCCTCTCACCGCCCGGGGCCACGCCTTCCCCAG
Seq C2 exon
GGCTACTACCGCCGCACTGCCGACTACTTTCCCACCAAGAACCGCCAGCGCCGGGGCTGCTTCCGTGTCCCCATGGTCCACTCCACCTTCCTGGTATCCCTGCGGGCTGAGGGGACGGGCCAGCTGGCCTTCTACCCACCTCACCCCAACTATACCTGGCCCTTCGACGACATCATCGTCTTTGCCTACGCCTGTCAGGCTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000038139:ENSBTAT00000004595:3
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:
PF137041=Glyco_tranf_2_4=PD(18.1=37.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGATGCTGGACTCTCAGACCT
R:
GCGTAGGCAAAGACGATGATG
Band lengths:
247-384
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development