Variant report

Variant	rs828828
Chromosome Location	chr9:9556992-9556993
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 50 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10977842	0.90[CHB][hapmap]
rs1359698	0.82[CHB][hapmap]
rs2890871	1.00[CEU][hapmap]
rs596331	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs606365	0.82[CHB][hapmap]
rs625517	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs626307	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs626804	1.00[CEU][hapmap];0.86[MEX][hapmap];0.86[TSI][hapmap];0.91[EUR][1000 genomes]
rs628077	1.00[CEU][hapmap];0.86[MEX][hapmap];0.86[TSI][hapmap];0.91[EUR][1000 genomes]
rs639168	1.00[CEU][hapmap];0.86[CHD][hapmap];0.86[MEX][hapmap];0.86[TSI][hapmap];0.91[EUR][1000 genomes]
rs647038	0.82[CHB][hapmap]
rs654406	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs666041	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[CHD][hapmap];0.83[GIH][hapmap];0.86[JPT][hapmap];0.86[MEX][hapmap];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs668550	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs669190	1.00[CHB][hapmap]
rs671823	0.82[CHB][hapmap]
rs736041	0.82[CHB][hapmap]
rs736042	0.82[CHB][hapmap]
rs828822	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs828824	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs828833	1.00[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap]
rs828837	0.82[CHB][hapmap]
rs828839	0.92[EUR][1000 genomes]
rs828840	1.00[CEU][hapmap];0.82[TSI][hapmap]
rs9407427	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:25 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	nsv613308	chr9:9409606-9750139	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv1033808	chr9:9431799-9777960	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv528425	chr9:9437674-9556992	Weak transcription Enhancers Flanking Active TSS Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv892264	chr9:9440838-9796577	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv1016118	chr9:9444744-9582169	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv892265	chr9:9476425-9796116	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	nsv613309	chr9:9495226-9574336	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv1023524	chr9:9496356-9666553	Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv892266	chr9:9506817-9704501	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
11	nsv613312	chr9:9516348-9572790	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
12	nsv892267	chr9:9516348-9588336	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
13	nsv613313	chr9:9516348-9591059	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
14	nsv466132	chr9:9516348-9605832	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
15	nsv613314	chr9:9516348-9605832	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
16	nsv466133	chr9:9516348-9609283	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
17	nsv613315	chr9:9516348-9609283	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
18	nsv466134	chr9:9526138-9605832	Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Weak transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
19	nsv613316	chr9:9526138-9605832	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
20	nsv466135	chr9:9526811-9605832	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
21	nsv613317	chr9:9526811-9605832	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
22	nsv892268	chr9:9533788-9599213	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
23	nsv466136	chr9:9538589-9605832	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
24	nsv613318	chr9:9538589-9605832	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
25	nsv982612	chr9:9551403-9563649	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:9556200-9559000	Enhancers	H1 Cell Line	embryonic stem cell
2	chr9:9556400-9557200	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
3	chr9:9556400-9558000	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
4	chr9:9556400-9558200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr9:9556600-9557800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr9:9556800-9557000	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
7	chr9:9556800-9557200	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
8	chr9:9556800-9557200	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
9	chr9:9556800-9557200	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
10	chr9:9556800-9557200	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell

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