BtaALTA0005418-3/4 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000021808 | CACNB3
Description
Bos taurus calcium channel, voltage-dependent, beta 3 subunit (CACNB3), mRNA. [Source:RefSeq mRNA;Acc:NM_174509]
Coordinates
chr5:31119325-31119889:-
Coord C1 exon
chr5:31119780-31119889
Coord A exon
chr5:31119420-31119476
Coord C2 exon
chr5:31119325-31119419
Length
57 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGA
5' ss Score
6.29
3' ss Seq
CCCTGTCCCTCCCTCCATAGCTG
3' ss Score
11.59
Exon sequences
Seq C1 exon
GATCTCTATCACCCGAGTCACCGCAGACCTCTCACTGGCAAAGCGATCCGTGCTCAACAATCCTGGCAAGAGGACCATCATCGAGCGCTCCTCTGCCCGCTCCAGCATTG
Seq A exon
CTGAAGTACAGAGTGAGATTGAGCGCATATTCGAGCTGGCCAAATCCCTGCAGCTAG
Seq C2 exon
TAGTGTTGGATGCCGACACCATCAACCACCCGGCACAGCTGGCCAAGACCTCGCTGGCCCCCATCATCGTCTTTGTCAAAGTGTCCTCACCGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021808-15-19,15-18,15-17,15-16-3/4
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.079 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=FE(20.4=100)
A:
NA
C2:
PF0062516=Guanylate_kin=FE(27.6=100)
Main Skipping Isoform:
NA
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:
AAGCGATCCGTGCTCAACAAT
R:
GACAAAGACGATGATGGGGGC
Band lengths:
147-204
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development