Variant report

Variant	rs7525100
Chromosome Location	chr1:173475612-173475613
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

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

No.	Distal block	Cell Line	Cell type
1	chr1:173475377..173477317-chr1:173683578..173686265,2	K562	blood:
2	chr1:173446841..173450176-chr1:173473892..173477707,4	K562	blood:
3	chr1:173445244..173446787-chr1:173474590..173476613,2	K562	blood:
4	chr1:173474043..173476441-chr1:173505318..173508116,2	K562	blood:
5	chr1:173398704..173399204-chr1:173475323..173476132,2	MCF-7	breast:
6	chr1:172714053..172714585-chr1:173475259..173475893,2	MCF-7	breast:
7	chr1:173444700..173449124-chr1:173472471..173476984,5	MCF-7	breast:
8	chr1:173474657..173477081-chr1:173504747..173506789,2	MCF-7	breast:
9	chr1:173399853..173401103-chr1:173475357..173476671,8	MCF-7	breast:
10	chr1:173445753..173447978-chr1:173472675..173475693,4	K562	blood:

No data

Variant related genes	Relation type
ENSG00000076321	Chromatin interaction
ENSG00000117592	Chromatin interaction

Extended variants
information (count: 99 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:98)

rs_ID	r²[population]
rs1024266	0.81[ASN][1000 genomes]
rs10737301	0.94[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10737303	0.81[ASN][1000 genomes]
rs10753078	0.94[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10753079	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10753080	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10798290	0.81[CHB][hapmap]
rs10912624	1.00[CHB][hapmap];0.91[JPT][hapmap];0.81[ASN][1000 genomes]
rs10912625	0.81[ASN][1000 genomes]
rs10912626	1.00[CHB][hapmap];0.91[JPT][hapmap];0.81[ASN][1000 genomes]
rs10912641	0.95[CHB][hapmap];0.91[JPT][hapmap]
rs10912643	1.00[CHB][hapmap];0.91[JPT][hapmap]
rs12026427	1.00[CHB][hapmap];0.91[JPT][hapmap]
rs12026637	0.81[ASN][1000 genomes]
rs12026677	1.00[CHB][hapmap];0.91[JPT][hapmap];0.81[ASN][1000 genomes]
rs12026993	0.81[ASN][1000 genomes]
rs12027451	0.81[ASN][1000 genomes]
rs12027495	0.81[ASN][1000 genomes]
rs12032790	0.89[AMR][1000 genomes]
rs12037210	1.00[CHB][hapmap];0.91[JPT][hapmap];0.81[ASN][1000 genomes]
rs12039524	0.88[CEU][hapmap];0.89[AMR][1000 genomes]
rs12041743	0.89[AMR][1000 genomes]
rs12042027	0.89[AMR][1000 genomes]
rs12058528	0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12065426	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12077271	0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12080769	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12406352	0.80[ASN][1000 genomes]
rs12565753	0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12724371	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12744504	0.94[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12745058	0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12753631	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12760501	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1461014	1.00[CHB][hapmap];0.91[JPT][hapmap]
rs1886639	1.00[CHB][hapmap];0.91[JPT][hapmap]
rs2017323	0.81[ASN][1000 genomes]
rs33942654	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs33951697	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34025182	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34259759	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs34296122	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs34331061	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs34332254	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34919111	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs34931189	0.86[ASN][1000 genomes]
rs35065145	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs35379498	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35607505	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35632090	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs35831548	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs35845062	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs36058163	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3934575	0.94[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3934576	0.94[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4244195	0.94[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4244196	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4294450	0.94[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4310474	0.94[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4462186	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4539167	0.94[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4916365	0.81[ASN][1000 genomes]
rs57032935	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60043192	0.81[ASN][1000 genomes]
rs61826747	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs61826748	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs61826749	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs61826753	0.83[ASN][1000 genomes]
rs61828886	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61828887	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61828888	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61828911	0.89[AMR][1000 genomes]
rs61828913	0.89[AMR][1000 genomes]
rs61828914	0.89[AMR][1000 genomes]
rs6425232	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6425251	0.80[CHB][hapmap]
rs6660804	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs66683313	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6670071	0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6671141	1.00[CEU][hapmap];0.85[CHB][hapmap];0.81[JPT][hapmap];0.89[EUR][1000 genomes]
rs6681766	0.80[CHB][hapmap]
rs6687872	1.00[CHB][hapmap];0.91[JPT][hapmap];0.80[ASN][1000 genomes]
rs6696443	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6699094	0.93[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs67180872	0.82[ASN][1000 genomes]
rs68193118	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7413754	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7516544	0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7520641	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7521536	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7524403	0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7524592	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7529089	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7529377	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7530469	0.94[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7541082	0.81[CHB][hapmap]
rs7549074	0.94[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs912767	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv831915	chr1:173268424-173482157	Flanking Active TSS Active TSS Weak transcription Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:173448000-173477000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr1:173458600-173476600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr1:173473200-173475800	Weak transcription	NHLF	lung
4	chr1:173473200-173476200	Weak transcription	Colon Smooth Muscle	Colon
5	chr1:173473200-173476200	Weak transcription	K562	blood
6	chr1:173473200-173476600	Weak transcription	NHDF-Ad	bronchial
7	chr1:173473600-173476600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr1:173473800-173476600	Enhancers	Hela-S3	cervix
9	chr1:173474000-173476800	Weak transcription	Fetal Brain Female	brain
10	chr1:173474200-173476400	Weak transcription	Fetal Brain Male	brain
11	chr1:173474600-173476200	Enhancers	A549	lung
12	chr1:173474800-173478400	Enhancers	Cortex derived primary cultured neurospheres	brain
13	chr1:173475400-173475800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr1:173475400-173475800	Enhancers	Esophagus	oesophagus
15	chr1:173475400-173476000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr1:173475400-173476400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr1:173475400-173476600	Enhancers	ES-I3 Cell Line	embryonic stem cell
18	chr1:173475400-173476600	Enhancers	HUES6 Cell Line	embryonic stem cell
19	chr1:173475400-173476600	Enhancers	HUES64 Cell Line	embryonic stem cell
20	chr1:173475400-173476800	Enhancers	Adipose Nuclei	Adipose
21	chr1:173475400-173477000	Enhancers	Stomach Mucosa	stomach
22	chr1:173475400-173477200	Enhancers	H1 Cell Line	embryonic stem cell
23	chr1:173475400-173477200	Enhancers	iPS-20b Cell Line	embryonic stem cell
24	chr1:173475400-173477200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
25	chr1:173475400-173477200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr1:173475400-173477200	Enhancers	Rectal Mucosa Donor 31	rectum
27	chr1:173475400-173477800	Enhancers	Stomach Smooth Muscle	stomach
28	chr1:173475400-173477800	Enhancers	HSMMtube	muscle
29	chr1:173475600-173475800	Enhancers	Brain Anterior Caudate	brain
30	chr1:173475600-173476000	Enhancers	HUES48 Cell Line	embryonic stem cell
31	chr1:173475600-173476400	Weak transcription	Sigmoid Colon	Sigmoid Colon
32	chr1:173475600-173477000	Enhancers	Fetal Intestine Large	intestine
33	chr1:173475600-173477200	Enhancers	Fetal Kidney	kidney
34	chr1:173475600-173477200	Enhancers	HSMM	muscle
35	chr1:173475600-173478400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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