Variant report

Variant	rs34673002
Chromosome Location	chr19:19344525-19344526
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr19:19344459-19344783	H1-neurons	neurons:	n/a	n/a

Variant related genes	Relation type
NCAN	TF binding region

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10403859	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10406659	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10411761	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10418279	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10424369	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11667950	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11668677	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11668734	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11671527	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11672216	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13345554	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2228600	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2238674	0.96[EUR][1000 genomes]
rs2283627	0.88[EUR][1000 genomes]
rs28393849	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28409009	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28446016	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28508263	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28510494	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28541794	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28628330	0.87[AMR][1000 genomes]
rs28838696	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs35583425	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3761080	0.88[EUR][1000 genomes]
rs73922843	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv911303	chr19:19256870-19505087	Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv911304	chr19:19303802-19408164	Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription Weak transcription Genic enhancers Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv911305	chr19:19303802-19663850	Genic enhancers Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	60 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:19325200-19344600	Weak transcription	Brain Angular Gyrus	brain
2	chr19:19330400-19344600	Weak transcription	Brain Anterior Caudate	brain
3	chr19:19339000-19344600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr19:19342600-19344600	Weak transcription	Brain Cingulate Gyrus	brain
5	chr19:19343400-19344600	Weak transcription	Fetal Brain Male	brain
6	chr19:19344000-19346000	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr19:19344000-19347200	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr19:19344200-19345800	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
9	chr19:19344200-19346000	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr19:19344200-19346000	ZNF genes & repeats	Brain Inferior Temporal Lobe	brain
11	chr19:19344200-19346000	ZNF genes & repeats	Skeletal Muscle Male	skeletal muscle
12	chr19:19344200-19347400	ZNF genes & repeats	Brain Germinal Matrix	brain
13	chr19:19344400-19346000	ZNF genes & repeats	Fetal Brain Female	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links