BtaALTA0004530-3/4 @ 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
chr23:28357302-28357949:-
Coord C1 exon
chr23:28357680-28357949
Coord A exon
chr23:28357389-28357481
Coord C2 exon
chr23:28357302-28357388
Length
93 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGC
5' ss Score
8.69
3' ss Seq
GGGTGGTCGGGGTGGGTCAGGGT
3' ss Score
-1.78
Exon sequences
Seq C1 exon
GCCCTCACTCCATGAGGTATTTCCTCACCGCCGTGTCCCGGCCCGGCCTCGGGGAGCCCCGCTTCATCACCGTCGGCTACGTGGACGACACGCAGTTCGTGCGGTTCGACAGCGACCGTCCAGATCCGAGGATGGAGCCGCGGGCGCGGTGGGTGGAGGATGAGGGGCCGGAGTATTGGGATCAAGAGACGCGGATACAAAAGGAAAACACACAGACTTTCCGAGCAAACCTGAACACCCTACTCGGCTACTACAACCAGAGCGAGGCCG
Seq A exon
GGTCTCACACCATCCAGTGGATGCACGGCTGCGGCGTGGGGTCGGACGGGCGCCTCCTCCGCGGGTATAATCAGCTCGCCTATGACGGCAAAG
Seq C2 exon
ATTACCTCGCCCTGAACGAGGACCTGCGCTCCTGGACCGCGGCGGACACAGCGGCTCAGATCACCAAGCGCAAGTGGGAGGCGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019386-1-6,1-5,1-4,1-3-3/4
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.242 A=NA C2=0.097
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(50.3=98.9)
A:
NA
C2:
PF0012913=MHC_I=PD(49.2=94.6)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGGATCAAGAGACGCGGATA
R:
ACTTGCGCTTGGTGATCTGAG
Band lengths:
169-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development