BtaALTA0004507-1/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000005182 | BOLA
Description
Bos taurus major histocompatibility complex, class I, A (BOLA-A), mRNA. [Source:RefSeq mRNA;Acc:NM_001040554]
Coordinates
chr23:27647936-27650942:+
Coord C1 exon
chr23:27647936-27648208
Coord A exon
NA
Coord C2 exon
chr23:27650667-27650942
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGA
5' ss Score
10.03
3' ss Seq
TTCTGATTCTTCTTCCTCAGACC
3' ss Score
8.81
Exon sequences
Seq C1 exon
GGTCTCACACCGTCCAAGAGATGTACGGCTGCGACGTGGGGCCGGACGGGCTTCTCCGCGGGTATGATCAGTTCGCCTACGACGGCAGAGATTACATCGCCCTGAACGAGGACCTGCGCTCCTGGACCGCGGCGGACACGGCGGCTCAAGTCACCAAGCACAATGCTGAGGCGGCAGGTGATGCGGCGCGTGTGAGGATCTACCTGGAGGGCAAGTGTGTGGAGTGGCTCCGCAGATACCTGGTGACCGGGAAGGACACGCTGCTGCGCGCAG
Seq A exon
NA
Seq C2 exon
ACCCTCCAAAGACACATGTGGCCCATCACCCCATCTCTGACCGTGAGGTCACCCTGAGGTGCTGGGCCCTGGGCTTCTACCCTGAGGAGATCTCACTGACCTGGCAGCGTGACGGGGAGGACCAGACTCAGGACATGGAGCTTGTGGAGACCAGGCCTTCAGGGGATGGAACCTTCCAGAAGTGGGCAGCCCTGGTGGTGCCTTCTGGAGAAGAGCAGAGATACACGTGCCATGTGCAGCACGAGGGGCTACAGGAGCCCCTCACCCTGAGATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005182-3-8,3-7-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.130 A=NA C2=0.387
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PD(48.9=94.6)
A:
NA
C2:
PF0765410=C1-set=WD(100=91.4)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGATCTACCTGGAGGGCAAGT
R:
GCCAGGTCAGTGAGATCTCCT
Band lengths:
183-258
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development