BtaALTA0033856-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000039946 | ZNF154
Description
Bos taurus zinc finger protein 154 (ZNF154), mRNA. [Source:RefSeq mRNA;Acc:NM_001076277]
Coordinates
chr18:65581665-65584171:+
Coord C1 exon
chr18:65581665-65581829
Coord A exon
chr18:65583631-65584103
Coord C2 exon
chr18:65584104-65584171
Length
473 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
CAAATTATTTTATTCCACAGATA
3' ss Score
8.96
Exon sequences
Seq C1 exon
CCTCCTGTGTTGTTTTTTGGTTGGCATTACGTGGTGTCAGAAGCAGGATACAGGATGCAGACCTGCATAAGCCCTTACCGACTCTAACACTGCCTTGGATTCAAGTCAGGTGCCTAGAAGACCCCGTTGAGCTTTTCATCTCCTTGGTGATCCCAGATCATGGTG
Seq A exon
ATACACACTTAAAAAGACAAGAGATTGAACTTCCCTGGTGGATCAGTGGTAAAGAATCTACCTGCCAATGCAGGAGACCCTGGTTTTACCCCTACTCCAAGAATTCCCACATGCTGAGGAGCAGTTAAGCCCATGTGCCACAACTGCTGAACCCACACACCATAGGTACTGAAGCCCACATGCCCTAGAGCCCAGGCTTCGCAATAAGAGAAGTACACTGCAGTGAAGAATAGCCCCGGTTTGGTGCAACTTGAGAAAAGTCCTCGCAGCAACGAAGACCCAGCCCAGCCAAAAATAAATAAATAAAAAACAAGAGATTTACTTCTTGTTGAAAATGGGGAATGAGATTTCCTTCCTCTCAGAACATTTACCTTAGAAAATTTGTAGGAACCGTCTCATCTTTTTAAAATGCATGTCTTTGAAGACTTCTAAGAAGGCCTTTTTTCAGCTGGTCTTTTTTTTTTTTTTCCCAG
Seq C2 exon
TTTTAGGACTCAGATGTCTTTCTCAAGAACCTGGGACCTGTCTCCTCCCACTGCAGACAGGGAAATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000039946-4-9,4-8-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0135222=KRAB=PD(0.1=0.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
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:
TGGTTGGCATTACGTGGTGTC
R:
ATTTCCCTGTCTGCAGTGGGA
Band lengths:
214-687
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development