Variant report

Variant	rs1333121
Chromosome Location	chr9:9341389-9341390
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10114510	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs10125868	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs10125869	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs1023218	0.95[JPT][hapmap]
rs10511523	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10816090	0.93[CEU][hapmap]
rs10816094	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10977651	0.92[CEU][hapmap]
rs12236616	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12350625	0.91[CEU][hapmap]
rs1332795	1.00[CHB][hapmap];0.89[JPT][hapmap];0.91[ASN][1000 genomes]
rs1332796	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1332797	1.00[CHB][hapmap];0.92[ASN][1000 genomes]
rs1332800	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1332802	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs1332803	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs1332806	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs1332812	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs1333105	0.86[CEU][hapmap]
rs1412880	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs1412881	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1547287	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs1855217	0.88[CHB][hapmap];0.83[JPT][hapmap]
rs1889106	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs1889108	0.88[CHB][hapmap];0.84[JPT][hapmap]
rs2001	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs2039419	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs2065511	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2065512	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2151325	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs2225596	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2382002	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes]
rs2780071	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2780072	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2780073	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2780075	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs2780076	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs3904501	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs4740976	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs4742585	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4742586	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7019201	0.88[CHB][hapmap];0.83[JPT][hapmap]
rs7047537	0.94[CHB][hapmap];0.94[JPT][hapmap];0.95[ASN][1000 genomes]
rs7850556	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7858684	0.88[CHB][hapmap];0.83[JPT][hapmap]
rs7866679	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9299094	0.94[CHB][hapmap];0.94[JPT][hapmap]
rs9407420	0.95[ASN][1000 genomes]
rs950196	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs9644896	1.00[CEU][hapmap];0.84[JPT][hapmap];0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv498066	chr9:8961722-9486652	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv892249	chr9:9026854-9377679	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv892252	chr9:9164473-9476425	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv892254	chr9:9253587-9348102	Enhancers Weak transcription Active TSS Flanking Active TSS	n/a	n/a	inside rSNPs	n/a
5	nsv824847	chr9:9255377-9378016	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv892255	chr9:9264932-9348102	Enhancers Weak transcription Active TSS Flanking Active TSS	n/a	n/a	inside rSNPs	n/a
7	nsv892256	chr9:9269284-9348102	Weak transcription Enhancers Active TSS Flanking Active TSS	n/a	n/a	inside rSNPs	n/a
8	nsv1025791	chr9:9294304-9626331	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
9	nsv892257	chr9:9304839-9349679	Enhancers Weak transcription Active TSS Flanking Active TSS	n/a	n/a	inside rSNPs	n/a
10	nsv892258	chr9:9304839-9455711	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
11	nsv892259	chr9:9311838-9348102	Enhancers Weak transcription Flanking Active TSS Active TSS	n/a	n/a	inside rSNPs	n/a
12	nsv520832	chr9:9326805-9364637	Enhancers Weak transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
13	nsv1024452	chr9:9339770-9355896	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:9340000-9341600	Enhancers	Cortex derived primary cultured neurospheres	brain
2	chr9:9340200-9341600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr9:9340400-9341800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr9:9340800-9341400	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr9:9340800-9341800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr9:9341200-9341400	Enhancers	iPS-18 Cell Line	embryonic stem cell
7	chr9:9341200-9341600	Enhancers	Brain Cingulate Gyrus	brain
8	chr9:9341200-9341600	Enhancers	Brain Germinal Matrix	brain
9	chr9:9341200-9341600	Enhancers	Brain Hippocampus Middle	brain
10	chr9:9341200-9341600	Enhancers	Brain Inferior Temporal Lobe	brain
11	chr9:9341200-9341800	Enhancers	Brain Substantia Nigra	brain

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