Variant report

Variant	rs10122890
Chromosome Location	chr9:9730929-9730930
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:11968121..11968918-chr9:9730851..9731851,3	HCT-116	colon:

Variant related genes	Relation type
ENSG00000199347	Chromatin interaction

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs10125050	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs10125726	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10511528	0.82[CHB][hapmap]
rs10816166	0.82[CHB][hapmap]
rs10977934	0.96[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs10977935	0.96[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap]
rs10977944	1.00[YRI][hapmap]
rs12336958	0.82[CHB][hapmap]
rs12346500	0.96[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap]
rs12353171	0.82[CHB][hapmap];1.00[YRI][hapmap]
rs1323797	1.00[YRI][hapmap]
rs1323801	1.00[YRI][hapmap]
rs1359174	1.00[YRI][hapmap]
rs1359176	0.82[CHB][hapmap]
rs1408123	0.82[CHB][hapmap];1.00[YRI][hapmap]
rs1408125	0.82[CHB][hapmap];1.00[YRI][hapmap]
rs1626530	0.82[CHB][hapmap];1.00[YRI][hapmap]
rs1629307	1.00[YRI][hapmap]
rs1746790	1.00[YRI][hapmap]
rs1746791	0.85[YRI][hapmap]
rs1746792	0.85[YRI][hapmap]
rs1746803	1.00[YRI][hapmap]
rs1746806	1.00[YRI][hapmap]
rs1746809	1.00[YRI][hapmap]
rs1768877	1.00[YRI][hapmap]
rs1768884	0.82[CHB][hapmap];1.00[YRI][hapmap]
rs1768885	1.00[YRI][hapmap]
rs1768891	0.85[YRI][hapmap]
rs1768892	0.85[YRI][hapmap]
rs1934267	1.00[YRI][hapmap]
rs2025392	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs2025394	0.82[CHB][hapmap]
rs2225979	0.92[CEU][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2263141	0.82[CHB][hapmap];1.00[YRI][hapmap]
rs2761695	1.00[YRI][hapmap]
rs2761696	1.00[YRI][hapmap]
rs2761699	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2761700	0.82[CHB][hapmap];1.00[YRI][hapmap]
rs2761702	0.82[CHB][hapmap];1.00[YRI][hapmap]
rs2761703	1.00[YRI][hapmap]
rs2761704	1.00[YRI][hapmap]
rs2761705	1.00[YRI][hapmap]
rs2761706	1.00[YRI][hapmap]
rs2761707	1.00[YRI][hapmap]
rs2761709	0.83[YRI][hapmap]
rs2821461	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs2821462	1.00[YRI][hapmap]
rs2821463	1.00[YRI][hapmap]
rs2821465	1.00[YRI][hapmap]
rs2821466	0.82[CHB][hapmap];1.00[YRI][hapmap]
rs2821468	1.00[YRI][hapmap]
rs3118010	0.82[CHB][hapmap];1.00[YRI][hapmap]
rs3118011	1.00[YRI][hapmap]
rs4273904	0.96[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap]
rs4552966	0.96[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap]
rs6477405	0.82[CHB][hapmap]
rs6477408	0.82[CHB][hapmap]
rs6477412	0.96[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs6477414	0.92[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs7027885	0.96[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap]
rs7047812	0.82[YRI][hapmap]
rs7852298	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs7873394	0.82[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	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
3	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
4	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
5	nsv892270	chr9:9591059-9860735	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv613319	chr9:9630855-9778653	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv1028772	chr9:9631694-9779358	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	esv2422381	chr9:9647540-9887820	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv1020468	chr9:9658670-9780975	Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	nsv539983	chr9:9658670-9780975	Weak transcription Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
11	nsv892274	chr9:9687742-9787587	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
12	nsv613320	chr9:9711904-9750139	ZNF genes & repeats Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
13	nsv526471	chr9:9718066-9832245	Bivalent Enhancer Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
14	nsv613321	chr9:9724976-9758609	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
15	nsv1034236	chr9:9728895-9779358	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:9729200-9731200	Enhancers	HUES48 Cell Line	embryonic stem cell

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