BtaALTD0003356-2/2 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000005182 | BOLA
Description
Bos taurus major histocompatibility complex, class I, A (BOLA-A), mRNA. [Source:RefSeq mRNA;Acc:NM_001040554]
Coordinates
chr23:27648007-27650942:+
Coord C1 exon
chr23:27648007-27648112
Coord A exon
chr23:27648113-27648208
Coord C2 exon
chr23:27650667-27650942
Length
96 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGA
5' ss Score
10.03
3' ss Seq
TTCTGATTCTTCTTCCTCAGACC
3' ss Score
8.81
Exon sequences
Seq C1 exon
TTCGCCTACGACGGCAGAGATTACATCGCCCTGAACGAGGACCTGCGCTCCTGGACCGCGGCGGACACGGCGGCTCAAGTCACCAAGCACAATGCTGAGGCGGCAG
Seq A exon
GTGATGCGGCGCGTGTGAGGATCTACCTGGAGGGCAAGTGTGTGGAGTGGCTCCGCAGATACCTGGTGACCGGGAAGGACACGCTGCTGCGCGCAG
Seq C2 exon
ACCCTCCAAAGACACATGTGGCCCATCACCCCATCTCTGACCGTGAGGTCACCCTGAGGTGCTGGGCCCTGGGCTTCTACCCTGAGGAGATCTCACTGACCTGGCAGCGTGACGGGGAGGACCAGACTCAGGACATGGAGCTTGTGGAGACCAGGCCTTCAGGGGATGGAACCTTCCAGAAGTGGGCAGCCCTGGTGGTGCCTTCTGGAGAAGAGCAGAGATACACGTGCCATGTGCAGCACGAGGGGCTACAGGAGCCCCTCACCCTGAGATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005182-2-8,3-8-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.130 A=NA C2=0.387
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PD(48.9=94.6)
A:
NA
C2:
PF0765410=C1-set=WD(100=91.4)
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
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTCAAGTCACCAAGCACAA
R:
CCATGTCCTGAGTCTGGTCCT
Band lengths:
173-269
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development