Variant report

Variant	rs12125159
Chromosome Location	chr1:212276023-212276024
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:212272164..212274596-chr1:212274692..212276930,2	K562	blood:
2	chr1:212274736..212277464-chr1:212284881..212286687,3	K562	blood:
3	chr1:212274205..212277124-chr1:212457940..212460616,4	K562	blood:
4	chr1:212274779..212276284-chr1:212279736..212282088,2	K562	blood:
5	chr1:212270755..212277124-chr1:212457942..212461824,7	K562	blood:

Variant related genes	Relation type
ENSG00000143476	Chromatin interaction
ENSG00000252879	Chromatin interaction
ENSG00000066027	Chromatin interaction

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10779569	1.00[YRI][hapmap]
rs11119825	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11119826	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11119827	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11119844	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11119865	1.00[YRI][hapmap]
rs12120122	1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs12120150	1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs12122247	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12122488	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12123274	1.00[YRI][hapmap]
rs12124877	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12125796	1.00[YRI][hapmap]
rs12126761	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12127488	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12128256	1.00[JPT][hapmap]
rs12130548	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12131060	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12131750	1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12132233	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12132812	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12135924	0.90[CHB][hapmap];1.00[YRI][hapmap]
rs12144471	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12144884	1.00[YRI][hapmap]
rs12145020	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12146085	0.85[ASN][1000 genomes]
rs12567425	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12723988	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12724564	0.90[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap]
rs12735358	0.90[CHB][hapmap]
rs12744135	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12747761	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12749452	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12750872	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs12755278	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12759730	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17018334	1.00[JPT][hapmap]
rs17018421	1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs17018532	1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs1965955	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2200944	0.96[ASN][1000 genomes]
rs2358448	1.00[YRI][hapmap]
rs34192465	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34841259	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35325760	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3762453	0.90[ASN][1000 genomes]
rs3795836	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6661987	1.00[YRI][hapmap]
rs71646137	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72748568	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs72750369	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[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	nsv999738	chr1:212218618-212513690	Enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:73 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:212214400-212278000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr1:212241600-212284600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr1:212254800-212278000	Weak transcription	NHDF-Ad	bronchial
4	chr1:212256400-212278600	Weak transcription	NHLF	lung
5	chr1:212262000-212276800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr1:212262000-212283000	Weak transcription	NH-A	brain
7	chr1:212262000-212284400	Weak transcription	Osteobl	bone
8	chr1:212262200-212279600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr1:212262200-212289200	Weak transcription	Muscle Satellite Cultured Cells	--
10	chr1:212263400-212278200	Weak transcription	Duodenum Mucosa	Duodenum
11	chr1:212264400-212282400	Weak transcription	Primary monocytes fromperipheralblood	blood
12	chr1:212267200-212287000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr1:212268600-212282800	Weak transcription	Primary neutrophils fromperipheralblood	blood
14	chr1:212269800-212279600	Strong transcription	Dnd41	blood
15	chr1:212270200-212278800	Weak transcription	Primary T cells from cord blood	blood
16	chr1:212270400-212280400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
17	chr1:212270600-212276800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr1:212270600-212280200	Weak transcription	Primary hematopoietic stem cells	blood
19	chr1:212270800-212279800	Strong transcription	Fetal Thymus	thymus
20	chr1:212271400-212280000	Strong transcription	GM12878-XiMat	blood
21	chr1:212271600-212280400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr1:212271600-212287000	Weak transcription	Primary B cells from cord blood	blood
23	chr1:212271800-212277400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
24	chr1:212271800-212277600	Strong transcription	Hela-S3	cervix
25	chr1:212271800-212278600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
26	chr1:212271800-212280200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr1:212272000-212281000	Weak transcription	Esophagus	oesophagus
28	chr1:212272000-212285400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr1:212272000-212285800	Weak transcription	Lung	lung
30	chr1:212272000-212291000	Weak transcription	Left Ventricle	heart
31	chr1:212272200-212276400	Weak transcription	Spleen	Spleen
32	chr1:212272200-212277200	Strong transcription	HUES64 Cell Line	embryonic stem cell
33	chr1:212272200-212277600	Strong transcription	HUES6 Cell Line	embryonic stem cell
34	chr1:212272200-212278200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
35	chr1:212272200-212279600	Weak transcription	H9 Cell Line	embryonic stem cell
36	chr1:212272200-212280200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
37	chr1:212272200-212280200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
38	chr1:212272200-212282800	Weak transcription	Placenta	Placenta
39	chr1:212272400-212277800	Weak transcription	Adipose Nuclei	Adipose
40	chr1:212272400-212278000	Weak transcription	Sigmoid Colon	Sigmoid Colon
41	chr1:212272600-212277000	Weak transcription	Fetal Intestine Large	intestine
42	chr1:212272600-212277800	Weak transcription	Small Intestine	intestine
43	chr1:212272600-212281600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
44	chr1:212273200-212277600	Strong transcription	HUES48 Cell Line	embryonic stem cell
45	chr1:212273200-212277800	Strong transcription	A549	lung
46	chr1:212273600-212277200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
47	chr1:212273800-212277800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
48	chr1:212274200-212276400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr1:212274200-212287000	Weak transcription	HMEC	breast
50	chr1:212274200-212301600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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