BtaALTA0004529-2/3 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000019386 | BOLA-NC
Description
Bos taurus non-classical MHC class I antigen (BOLA-NC1), mRNA. [Source:RefSeq mRNA;Acc:NM_001105616]
Coordinates
chr23:28357680-28358332:-
Coord C1 exon
chr23:28358262-28358332
Coord A exon
chr23:28357838-28357949
Coord C2 exon
chr23:28357680-28357837
Length
112 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
TCACCCCTCCCCGCTCTCAGGCC
3' ss Score
9.99
Exon sequences
Seq C1 exon
GTGCGTCATGGGGCCGCGAACCCTCCTCCTGCTCCTCTTGGGGGTCCTGGTCCCCCGAGACACACGGGCGG
Seq A exon
GCCCTCACTCCATGAGGTATTTCCTCACCGCCGTGTCCCGGCCCGGCCTCGGGGAGCCCCGCTTCATCACCGTCGGCTACGTGGACGACACGCAGTTCGTGCGGTTCGACAG
Seq C2 exon
CGACCGTCCAGATCCGAGGATGGAGCCGCGGGCGCGGTGGGTGGAGGATGAGGGGCCGGAGTATTGGGATCAAGAGACGCGGATACAAAAGGAAAACACACAGACTTTCCGAGCAAACCTGAACACCCTACTCGGCTACTACAACCAGAGCGAGGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019386-0-2,0-1,0-0-2/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.242
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(0.1=0.0)
A:
NA
C2:
PF0012913=MHC_I=PU(50.3=98.9)
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:
AACCCTCCTCCTGCTCCTCTT
R:
GGCCTCGCTCTGGTTGTAGTA
Band lengths:
210-322
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development