BtaALTD0003371-2/2 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000019386 | BOLA-NC
Description
Bos taurus non-classical MHC class I antigen (BOLA-NC1), mRNA. [Source:RefSeq mRNA;Acc:NM_001105616]
Coordinates
chr23:28355810-28356303:-
Coord C1 exon
chr23:28356028-28356303
Coord A exon
chr23:28356016-28356027
Coord C2 exon
chr23:28355810-28355909
Length
12 bp
Sequences
Splice sites
5' ss Seq
GGGGTAGGA
5' ss Score
4.36
3' ss Seq
CTCTTCCCTTGCCTCCACAGAAC
3' ss Score
12.1
Exon sequences
Seq C1 exon
ACCCTCCAAAGGCACATGTGGCCCATCACCCCAGCTCTGAGCGTGAGGTCACCCTGAGGTGCTGGGCCCTGGGCTTCTACCCTGAGGAGATCTCACTGACCTGGCAACGCAATGGGGAGGACCAGATCCAGGACATGGAGCTTGTGGAAACCAGGCCTTCAGGGGACGGAACCTTCCAGAAGTGGGCGGCCCTGGCGGTGCCTTCTGGAGAGGAGCAGAGATACACGTGCCGTGTGCAGCACGAGGGGCTTCAGGGGCCCCTCACCCTGAGATGGG
Seq A exon
GTAAAGGAGGGG
Seq C2 exon
AACCTCCTCAGCCCTCTGTCCCCATCATGGGCATCATTCTTGTCCTGGTTCTCCTCGTGGTGGCTGTGGTGGCTAGAGCTGTGATCTGGAGTAAGAAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019386-4-10,5-10-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.309 A=NA C2=0.029
Domain overlap (PFAM):
C1:
PF0765410=C1-set=WD(100=85.6)
A:
NA
C2:
NO
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:
CCTTCTGGAGAGGAGCAGAGA
R:
GACAGAGGGCTGAGGAGGTT
Band lengths:
96-108
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development