BtaALTD0020145-1/2 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000007650 | SLC38A11
Description
Bos taurus solute carrier family 38, member 11 (SLC38A11), mRNA. [Source:RefSeq mRNA;Acc:NM_001031760]
Coordinates
chr2:31391843-31392741:+
Coord C1 exon
chr2:31391843-31391943
Coord A exon
NA
Coord C2 exon
chr2:31392624-31392741
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
ATTTTTATATACTGAAATAGAGC
3' ss Score
4.14
Exon sequences
Seq C1 exon
CGCGGAGGAGTCGAGGACCCGCGCCCGCGAACCTTCCACCCGCGGAAGACCCGGGTGCAGCCATGGGCTACCCCGGGCAGAGGCCCGTCATCCCGCCGCAG
Seq A exon
NA
Seq C2 exon
AGCCATCGAGATGACAGAGAAACCCTGGTTTCTGAACATAAGCACAAAGGGAAAACTTGTCGTCAGTCTGCTGCCGTTTTTAATGTTGTCAACTCAATTATAGGGTCTGGTATAATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007650-1-0,2-0-1/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.769 A=NA C2=0.375
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0149013=Aa_trans=PU(42.3=55.0)
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:
CGCGGAGGAGTCGAGGAC
R:
ACCAGACCCTATAATTGAGTTGACA
Band lengths:
212-507
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development