BtaEX6096785 @ 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
chr23:7187748-7189859:-
Coord C1 exon
chr23:7189575-7189859
Coord A exon
chr23:7188182-7188298
Coord C2 exon
chr23:7187748-7187783
Length
117 bp
Sequences
Splice sites
3' ss Seq
TTCAGTTCCTGTTTCCGCAGCTC
3' ss Score
7.64
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
Exon sequences
Seq C1 exon
GCCCACCGACCGTGCAGGTAGCCAAAACCACTCCTTTTAACACGAGGGAGTCTGTGATGCTGGCCTGCTATGTGTGGGGCTTCTATCCAGCGGACGTGGCCATCACGTGGAGGAGGAACGGGCAGGAGGTCCTCCCACACGGCAGGGCCTGGAGGATCATCCAGCCCAACGGAGACTGGACATACCAGACCGTCTCCCATCTGGCCACAACCCCCTCTTTTGGGGATACCTACACCTGTGTGGTCGAGCACATTGGGGCTCCTGAACTCATCCTTCAGGACTGGA
Seq A exon
CTCCTGGGCTGTTGCCTGCGCAGACGGTGAAGGTTTCTGTGGCTCTGGTAACGCTGGTCCTGGGTCTCATCATCTTCGTTTTCGGTCTGCACAGTTGGCGGAGAGCCACCTCCTCCG
Seq C2 exon
GCTACATTTTCCTCCCGGGGTCCACTTATCCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012451-'5-7,'5-6,8-7=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.031 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0765410=C1-set=WD(100=87.5)
A:
NO
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTCTATCCAGCGGACGTG
R:
TTCTGGATAAGTGGACCCCGG
Band lengths:
242-359
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]