BtaALTD0019272-2/3 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000001352 | SDCCAG3
Description
Bos taurus serologically defined colon cancer antigen 3 (SDCCAG3), mRNA. [Source:RefSeq mRNA;Acc:NM_001046140]
Coordinates
chr11:103914650-103915490:-
Coord C1 exon
chr11:103915422-103915490
Coord A exon
chr11:103915409-103915421
Coord C2 exon
chr11:103914650-103914762
Length
13 bp
Sequences
Splice sites
5' ss Seq
TCGGTAATC
5' ss Score
4.55
3' ss Seq
TGACACTTGGTGTCTTTCAGATG
3' ss Score
9.68
Exon sequences
Seq C1 exon
ATTTTGGCTATGGAAAGGGGAAGTGTGCTAAGCAAGGTCCACCGGGAGCTCAGAACACACACTTTGGAG
Seq A exon
GTAGAGTAGTTCG
Seq C2 exon
ATGATAAACTTGGAGATCTGGAAGCGGCAAACCCGTTCTCCTTTAAAGAGTTTTTGAAGACCAAGAACCTGAGCCTGTCGAAAGAGGACACCGACAGCAGAGTTTACTCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001352-4-3,5-3,6-3-2/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=0.750 A=NA C2=0.329
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
ENSBTAT00000055628fB6188
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
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:
GGGGAAGTGTGCTAAGCAAGG
R:
TAAAGGAGAACGGGTTTGCCG
Band lengths:
98-111
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development