BtaALTD0022670-3/3 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000001697 | TRA2B
Description
Bos taurus transformer 2 beta homolog (Drosophila) (TRA2B), mRNA. [Source:RefSeq mRNA;Acc:NM_001034776]
Coordinates
chr1:81884999-81890273:+
Coord C1 exon
chr1:81884999-81885231
Coord A exon
chr1:81885232-81885395
Coord C2 exon
chr1:81890140-81890273
Length
164 bp
Sequences
Splice sites
5' ss Seq
TAGGTAATT
5' ss Score
7.27
3' ss Seq
CTTTTGACATCTACGTGTAGGAA
3' ss Score
6.3
Exon sequences
Seq C1 exon
GTTAATGTTGAAGAAGGAAAATGCGGAAGTCGTCATTTGACAAGTTTTATAAATGAGTATTTGAAGCTCAGGAATAAGTGAAGCTGAAATTTGAAAAAATAAAAGAAAGAATGCATGCTAATTATCAGACCAGAAGTCCCACTTGTAGAATATTGAGCAATTTGTGTGAAGTGGGGAAGATGAAAGAAGTCAGAATTTGAAACGGAAGAATGAAGAAAAGAAATAAAAATGAA
Seq A exon
GTTAAGATAAGAAGTAATCTGGAATCAGAAAGCACTACGCTAAGTAATTACTAGTCTGTTTATGTGTCCCTGTATATTTTGCTAAACATGCATGCATTATTTGTTTAATAGAAGAAATATATACAGGGTAAAGAAGTGCCTTCCAGGGGAAACGTTTAAATTAG
Seq C2 exon
GAATCCCGTTCTGCTTCCAGAAGTGGAAGTGCTCATGGATCTGGGAAATCTGCAAGGCATACCCCTGCAAGGTCTCGCTCCAAGGAAGATTCCAGGCGTTCCAGATCAAAGTCCAGGTCCAGATCTGAATCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001697-1-4,2-4,3-4-3/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=0.192 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
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:
AGGAAAATGCGGAAGTCGTCA
R:
CACTTCTGGAAGCAGAACGGG
Band lengths:
244-408
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development