BtaALTA0000306-2/3 @ bosTau6
Alternative 3'ss
Description
Bos taurus major histocompatibility class I related protein (MIC1), mRNA. [Source:RefSeq mRNA;Acc:NM_001127317]
Coordinates
chr23:27726236-27727008:-
Coord C1 exon
chr23:27726748-27727008
Coord A exon
chr23:27726363-27726482
Coord C2 exon
chr23:27726236-27726362
Length
120 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
CAGGCTTACATTCCCTCCAGGAG
3' ss Score
8.43
Exon sequences
Seq C1 exon
GATCCCACAGTCTTTTATACAACATGACTGTGCTTTCCCGGGATGGCTTTGTGCAGTCCAGGTTTTTTGCTGAAGGATACTTGGATCGTCAGGCCTTCCTGCACTATGATCACAAAAAAGGCAGGGCAGAGCCCTGGGGACGGTGGCCTGAAAAACTGGCAGCAGAGACGTGGGAGACAGAGACCATGGACTTGAATGAGAGCTGGAAGGAGCTCAGAAAACTTCTAGCAGAAATCCTGTCCCTGCAGGAGGAGAAAGGAG
Seq A exon
GAGACCGTGGGCTGTGATATCAATGAAGACAGCCACCCCCAGGGCTTCCGGCTTCTCTACTTCAATGGGGAGCTCCTCCTCTCCTGCTACCCGGAGCCCCACGGATGTACCCTGCCCCAG
Seq C2 exon
TCCTCGGCTCGGACCTTGGCCATGGAAATGGAGTTAAGCAAGCATTACCAGGCCCACGTGCAGGGAGAACTTTGTAGGAGACTGCGGAGCTACCTAGAATCCTGGCCGGGCTTCACGGAGAGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010166-2-3,2-2,2-1-2/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.011
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(51.8=98.9)
A:
NA
C2:
PF0012913=MHC_I=PD(47.6=89.9)
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:
CTTGGATCGTCAGGCCTTCCT
R:
ACAAAGTTCTCCCTGCACGTG
Band lengths:
257-377
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development