BtaEX6096786 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000012451 | HLA-DMB
Description
Bos taurus major histocompatibility complex, class II, DM beta (BOLA-DMB), mRNA. [Source:RefSeq mRNA;Acc:NM_001040481]
Coordinates
chr23:7186801-7188298:-
Coord C1 exon
chr23:7188182-7188298
Coord A exon
chr23:7187748-7187783
Coord C2 exon
chr23:7186801-7187399
Length
36 bp
Sequences
Splice sites
3' ss Seq
CAAATATTTTCTTCTCCTAGGCT
3' ss Score
8.2
5' ss Seq
AAGGTAATG
5' ss Score
8.99
Exon sequences
Seq C1 exon
CTCCTGGGCTGTTGCCTGCGCAGACGGTGAAGGTTTCTGTGGCTCTGGTAACGCTGGTCCTGGGTCTCATCATCTTCGTTTTCGGTCTGCACAGTTGGCGGAGAGCCACCTCCTCCG
Seq A exon
GCTACATTTTCCTCCCGGGGTCCACTTATCCAGAAG
Seq C2 exon
GTCAGCACAATTGATAGAGGCAGAACCCTACAGCTTTCCCTCCACGTGAGAAGGAGTTCTGAACTCTTGGGGATGCTGCTGGGGCCCTCCAGCTCCTCCAGCCCTCCACATCTTCTTGGACCCTATGGTTTCTCTATTTAATTCTTTGAATTTCCCAGTCTTCCCTATGTGAGGGCTTTCCTGGTGGCTCAGCTGGTAAAGAATCCGCCTGCAATACGGGAGACCTGTGTGTGATCCCTGGGTTGGGAAGATCCCCTGGAGAAGGGAACGGCTACCCACTTCAATATTCTGGCCTGGAGAATTCCATGGACTGTAAAGTCCATGGGGTCACGAAGAGTTGGACATGACTGAGCGACTTTCACTTCACTTCACTTCACTTCACTTCCTTATGTGAACCTTAGTAACTTGGGGAAACTCATTCCTGGTAAAAAATATTCTGTAACCAAGGTGCTGTCCATATGCAGAGCCCAGGGCTAAATATCTGGGGTGAATATCATCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012451-'8-8,'8-7,9-8=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.500
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTCTGTGGCTCTGGTAACGC
R:
GGAAAGCTGTAGGGTTCTGCC
Band lengths:
123-159
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]