RnoALTD0001450-2/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000039906 | Abo3
Description
histo-blood group ABO system transferase 3 [Source:RGD Symbol;Acc:628609]
Coordinates
chr3:5118932-5119713:+
Coord C1 exon
chr3:5118932-5119032
Coord A exon
chr3:5119033-5119051
Coord C2 exon
chr3:5119657-5119713
Length
19 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
CATGCCTATCCTTCCCACAGCTA
3' ss Score
10.6
Exon sequences
Seq C1 exon
AGTAACTAGATCCTTTGGTGCTGTTTTTCAGGAAGACCGAAATGCTACTCACTTCACCTTGGAATCCTTCCCTTCATTGTGCTTGTCTTAGTCTTCTTTGG
Seq A exon
GTAAGAAGGACACAGGCTG
Seq C2 exon
CTATGGATTCCTGAGCCACAAAATCCAGGAATTCAGGAACCCAGGAGGTGAGACTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000039906-0-1,1-1-2/2
Average complexity
Alt5
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=0.000
Domain overlap (PFAM):
C1:
PF034148=Glyco_transf_6=PU(3.6=46.2)
A:
NA
C2:
PF034148=Glyco_transf_6=FE(5.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
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:
TGCTGTTTTTCAGGAAGACCGA
R:
CCTGGATTTTGTGGCTCAGGA
Band lengths:
112-131
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]