BtaEX0018724 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000020116 | JSP.1
Description
Bos taurus MHC Class I JSP.1 (JSP.1), mRNA. [Source:RefSeq mRNA;Acc:NM_001040498]
Coordinates
chr23:28469735-28470441:-
Coord C1 exon
chr23:28470409-28470441
Coord A exon
chr23:28470223-28470270
Coord C2 exon
chr23:28469735-28470060
Length
48 bp
Sequences
Splice sites
3' ss Seq
CTGATCTTATTCTCCCCCAGGGA
3' ss Score
10.89
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
Exon sequences
Seq C1 exon
GTGAAAAAGGAGGCAATTATATCCAGGCTTCAA
Seq A exon
GGAGTGACAGTGCCCAGGGCTCTGATGTGTCTCTCACGGTTCCTAAAG
Seq C2 exon
TGTGAGACACCTGCCTTATGGGGACTGAGTGATGCTTCATCCCACTATGTGACATTAGATCCCTGGACCGCTCTTTCTGCAGCTGCATCTGAATGCGTCTGTGCTCCTATTCGCATAACGTAGGAGTTAGGGAGACTGGCCCACCCATGCCCACTGCTGCCCTTCCCCACTGCCGTCCCTCCCGACCCTGACCTGTGTTCTCTTCCCTGATCCACTGTCCTGTTCCAGCAGAAATGAGGCTGGACCATGTCTATCCCTGTCTTTGCTTTATATACACTGAATAATGATATCTTATTTCTTTATTGAAAATAAAATCTGTATATATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020116-'6-13,'6-11,7-13
Average complexity
S
Mappability confidence:
100%=75=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.583 A=0.059 C2=0.000
Domain overlap (PFAM):
C1:
PF066236=MHC_I_C=FE(37.9=100)
A:
PF066236=MHC_I_C=PD(51.7=88.2)
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
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:
AGGAGGCAATTATATCCAGGCT
R:
GGAGCACAGACGCATTCAGAT
Band lengths:
133-181
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development