BtaEX0001216 @ bosTau6
Exon Skipping
Description
Bos taurus major histocompatibility complex, class I (LOC512672), mRNA. [Source:RefSeq mRNA;Acc:NM_001076841]
Coordinates
chr23:28261229-28302723:+
Coord C1 exon
chr23:28261229-28274542
Coord A exon
chr23:28298512-28298792
Coord C2 exon
chr23:28302427-28302723
Length
281 bp
Sequences
Splice sites
3' ss Seq
TTCTTTCTTCGTTCTCGCAGCCT
3' ss Score
10.05
5' ss Seq
CAAGTGAGA
5' ss Score
5.26
Exon sequences
Seq C1 exon
ACACTTCTCCTCTCTCCTGGCCAGTCTCGGGAGAAGGTGGCTCGCCGAGTCGGCGGCCAATAATGTGGCGGTCCTGCTGGTCTCAGCTGGCACGTCATTTCCGACTAGTTGAGTTTTAGGCTTTTAACATTCAAGGATTAGCTCAGTCCTGCTTTGGGCTTCGGATATTCCTTACCTTGTCCCTTCTAGGCGGGCTTTATGGAAATTACCTGCTGTCTCCGCTGGAGTGGGAGCCTCGAAAGAGCTGGTACTGCGACTCTGCTGCTCACCTTCGCATCCTCGGCTCCTTGCTCGGGGCCCGACTGCAGTGAGCGCGCCTTGAACTCGGGTTCTGAATGCGAGAGAATCCTGTCTTTTTCCAGTTTGGGAGCTTTGACTTGAGTTTCTCCCCAAGAGTAGATAGTGCTTGTATGGAGACTCCAGACTCCTGCGTTATTACCTCCTTACTTTCCTCTCCTGTTGCTGGAAGCTTCGCAGGTCTGTGACTTTGGAGGACGAGG
Seq A exon
CCTGTTCTTGAAGTTGGGGTCACTTCGTCTCTTGCGGTCGAAGTAAATGCAGTAACCGATGAAAAGGGCCCCGCACACGCCGGCGGCGATGGCGCTGTTCCGGCCCACCATCTTCTCTCCACCGAGGAGCCGGGTCGGCTGCGGCGGGGCCCTCAAAGAAGCCGTTGACCGCGAAGCCTCGGATCCGAGTGCGCGGCTCAGTCCCGACGCCCGACGCCCGCCGCGAGGGACCTAATGGGACATTTTAAATGAGTGGCAGTTCACACCATAAATCGCCCCAA
Seq C2 exon
GATCACACTCTCTGCAGTATTTCTACTCAGTTGTGTCTGAACCGGGTCCAGGAGTCCCTTCATTTATGGCTTTTGGCTTCGTGGACAACCAGCCCTTCATTCGCTATGACAGTGAAGAGATGAAGGCAAAGTCTTGTGTTCATTGGTTGAGGGAGGAGCCAAGTTACTTTGATGATGAGACCAAGATCTTCACAAGTCGGATGAAGATTTTCCACTTAAATCTGAGGAATGTACAGCAATATTACAACCAAACCAAGGAGGATGGTCTGAACAGAGCGCTGGCACAAAAGCAAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000038619_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.040
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0012913=MHC_I=PU(52.7=99.0)
Main Inclusion 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:
GCAGGTCTGTGACTTTGGAGG
R:
CAGCGCTCTGTTCAGACCATC
Band lengths:
308-589
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development