BtaALTA0033862-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000006805 | ZNF180
Description
Bos taurus zinc finger protein 180 (ZNF180), mRNA. [Source:RefSeq mRNA;Acc:NM_001075644]
Coordinates
chr18:52641932-52647490:-
Coord C1 exon
chr18:52647416-52647490
Coord A exon
chr18:52642011-52642052
Coord C2 exon
chr18:52641932-52642010
Length
42 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
GAATGTGTGTCCTGTTTTAGGAG
3' ss Score
9.48
Exon sequences
Seq C1 exon
GACTCTCTGCTTCCTCAGGAGATTATCATCAAGGTTGAGGGAGAAGATGCCCGGTCACTGGCCGTCCCATCCCAG
Seq A exon
GAGGGAGTGAACTTCAAAATAGTGACTGTGGACTTCACTCAG
Seq C2 exon
GAAGAAGAAGGCACTTTGAGCTCTGCTCAGAGGACCCTGGACAGAGATGTGATCCTGGAAAACCACGGGGACTCTTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006805-5-6,5-5-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.195
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0135222=KRAB=WD(100=95.1)
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:
GACTCTCTGCTTCCTCAGGAG
R:
TCCAGGATCACATCTCTGTCCA
Band lengths:
134-176
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development