HsaALTA0009921-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000128000 | ZNF780B
Description
zinc finger protein 780B [Source:HGNC Symbol;Acc:33109]
Coordinates
chr19:40553313-40554703:-
Coord C1 exon
chr19:40554577-40554703
Coord A exon
chr19:40553378-40553380
Coord C2 exon
chr19:40553313-40553377
Length
3 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGG
5' ss Score
9.08
3' ss Seq
CATGTGTTATTTCTTTTAAGCAG
3' ss Score
6.35
Exon sequences
Seq C1 exon
GGATCAGTGACATTCAGGGATGTGGCCATTGACTTCTCTCAGGAGGAGTGGGAGTGCCTGCAGCCTGATCAGAGGACCTTGTACAGGGATGTGATGTTGGAGAACTACAGCCACCTGATATCACTGG
Seq A exon
CAG
Seq C2 exon
GAAGTTCCATTTCTAAGCCAGATGTGATTACATTACTAGAGCAAGAGAAAGAGCCCTGGATTGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000128000-5-6,5-5-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0135222=KRAB=WD(100=95.3)
A:
NA
C2:
PF0135222=KRAB=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
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:
TGTTGGAGAACTACAGCCACC
R:
TCCAGGGCTCTTTCTCTTGCT
Band lengths:
93-96
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)