BtaALTA0000053-2/2 @ bosTau6
Alternative 3'ss
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1N3I2]
Coordinates
chr23:27715377-27715963:+
Coord C1 exon
chr23:27715377-27715650
Coord A exon
chr23:27715825-27715862
Coord C2 exon
chr23:27715863-27715963
Length
38 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGC
5' ss Score
8.69
3' ss Seq
TTACCCGGTTTCTTTTTCAGTTT
3' ss Score
12
Exon sequences
Seq C1 exon
CCAGGCTCCCACTCCCTGAGCTATTTCTGCACCTGCGTGTCCCGGCCCGGCCTCGGGGAGCCGCGTTTCTTTGCCGTCGGCTACGTGGACCGCACACAGTTCGCGCGGTTCGACAGCGACGCCCCGAATCCGAGAATGGAGCCGCGGGCGCCTTGGATGGAGCAGGAGGGGCCGGAGTATTGGGAAGAGATGACACGAGATGCCAAGAAAGCTCAACAGAGAATGCGATTAGCCTTGAACAACCTGCGCGGCTACTACAACCAGAGCGAGGCCG
Seq A exon
TTTGGATTTAATCACGGCGGATGGTCGGGGCGGGTCAG
Seq C2 exon
GGTCTCACACCCTCCAGTTTGTGTTTGGCTGCCACGTGGGGCTGGACGGGCGCCTCCTCCGCGGGATCTGGCGGACCGCCTATGACGGTGCGGATTACCTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001476-1-2,1-1-2/2
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=0.196 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(50.6=97.8)
A:
NA
C2:
PF0012913=MHC_I=FE(18.5=100)
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:
ACACGAGATGCCAAGAAAGCT
R:
AGCCAAACACAAACTGGAGGG
Band lengths:
112-150
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development