BtaALTD0017269-1/4 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000048151 | PRPF40A
Description
PRP40 pre-mRNA processing factor 40 homolog A (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:16463]
Coordinates
chr2:43585359-43586829:+
Coord C1 exon
chr2:43585359-43585459
Coord A exon
NA
Coord C2 exon
chr2:43586698-43586829
Length
0 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
AAATTGTCCCTCTTTTTCAGATG
3' ss Score
10.46
Exon sequences
Seq C1 exon
GATCGCTTTTTGTTGGTATGTGTAGCGGCAGTGGCCGCCGGCGGAGCAGTCTGAGCCCGACGATGAGGCCGGGGACGGGAGCCGAGCGTGGAGGCCTCATG
Seq A exon
NA
Seq C2 exon
ATGGGGCATCCTGGCATGCATTATGCCCCAATGGGAATGCATCCTATGGGTCAGAGAGCGAATATGCCTCCTGTACCTCATGGAATGATGCCACAAATGATGCCCCCAATGGGAGGACCACCAATGGGACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000048151-0-0,1-0,2-0,3-0-1/4
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.985 A=NA C2=0.898
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
TTTTGTTGGTATGTGTAGCGGC
R:
TTGTCCCATTGGTGGTCCTCC
Band lengths:
226-352
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development