BtaALTD0017278-2/2 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000016589 | PRPF40B
Description
PRP40 pre-mRNA processing factor 40 homolog B (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:25031]
Coordinates
chr5:30383958-30384186:-
Coord C1 exon
chr5:30384114-30384186
Coord A exon
chr5:30384066-30384113
Coord C2 exon
chr5:30383958-30383982
Length
48 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGG
5' ss Score
7.13
3' ss Seq
GTTATCCTTTCCTGTTGCAGCTC
3' ss Score
10.59
Exon sequences
Seq C1 exon
CTCCTGCTGTCCCAGTGTCCCTGGAAAGAGTACAAGTCGGACACAGGCAAACCTTACTACTACAACAATCAGA
Seq A exon
GTAAGGAGTCCCGCTGGACCCGGCCCAAGGACCTGGATGACCTGGAGG
Seq C2 exon
CTCTAGTCAAACAAGAGGCTGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016589-8-7,9-7-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.683 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0039721=WW=WD(100=73.2)
A:
NA
C2:
NO
Main Skipping 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:
CTCCTGCTGTCCCAGTGTCC
R:
CCTGCAGCCTCTTGTTTGACT
Band lengths:
98-146
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development