BtaALTD0003204-1/2 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000015789 | BCAN
Description
brevican [Source:HGNC Symbol;Acc:HGNC:23059]
Coordinates
chr3:14237444-14241576:-
Coord C1 exon
chr3:14241476-14241576
Coord A exon
NA
Coord C2 exon
chr3:14237444-14237554
Length
0 bp
Sequences
Splice sites
5' ss Seq
CCGGTAGGT
5' ss Score
9.39
3' ss Seq
TCCCATCTCTCCTCCTCCAGTCC
3' ss Score
10.05
Exon sequences
Seq C1 exon
TTGCAGCTGCAGGACCGAGCCGTGGACCCAGAAGAGACCCCCAAAGGAGGGGGCAAACTTCGCGGTGCCTCACCCCCACCCCGGTCCTCAGTTGCCTGCCG
Seq A exon
NA
Seq C2 exon
TCCCTCCCTCATCCTGCAGCATGGCCCCACTGTTCCTGCCCCTCCTGGCAACCCTGGTTCTGGCCTGGATCCCTGTGGCCTTGGCTGATGCTCTGGAAGGAGACAGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015789-0-1,1-1-1/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0768612=V-set=PU(1.6=6.5)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGAAGAGACCCCCAAAGGA
R:
CATGCTGCAGGATGAGGGAG
Band lengths:
97-101
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development