Variant report

Variant	rs12028429
Chromosome Location	chr1:225577063-225577064
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	chr1:225574120..225577157-chr1:225578025..225581400,4	K562	blood:

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10495240	0.95[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap];0.87[ASN][1000 genomes]
rs10753404	0.91[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs10753405	0.90[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs10799301	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10915817	0.84[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs10915820	0.80[ASN][1000 genomes]
rs11578124	0.85[AMR][1000 genomes]
rs11580119	0.90[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs12073561	0.85[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12134158	0.80[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1538933	0.90[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2282379	1.00[CEU][hapmap];0.94[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2406109	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3766928	0.80[CEU][hapmap]
rs3856154	0.95[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3856155	0.90[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs3949347	0.90[CEU][hapmap];1.00[CHB][hapmap];0.89[ASN][1000 genomes]
rs5015446	0.90[CEU][hapmap];0.93[CHB][hapmap];0.88[JPT][hapmap];0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs6426069	0.87[ASN][1000 genomes]
rs6426071	0.87[ASN][1000 genomes]
rs6426072	0.80[ASN][1000 genomes]
rs6426073	0.87[ASN][1000 genomes]
rs6679430	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7539172	0.95[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap];0.87[ASN][1000 genomes]
rs947035	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.81[YRI][hapmap];0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs947036	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs947037	0.81[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs950210	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[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	esv3362974	chr1:225576536-225577114	Weak transcription Enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:225564400-225577600	Weak transcription	Fetal Intestine Small	intestine
2	chr1:225567000-225583400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr1:225567000-225585000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr1:225567200-225577600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr1:225567200-225585000	Weak transcription	NHEK	skin
6	chr1:225568200-225583200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr1:225568200-225585000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr1:225568200-225595800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr1:225569400-225585000	Weak transcription	Pancreas	Pancrea
10	chr1:225570400-225587600	Weak transcription	Spleen	Spleen
11	chr1:225570800-225600000	Weak transcription	HSMMtube	muscle
12	chr1:225571400-225583400	Weak transcription	Aorta	Aorta
13	chr1:225571400-225585000	Weak transcription	Gastric	stomach
14	chr1:225574600-225577800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr1:225574800-225584000	Weak transcription	Primary T cells from cord blood	blood
16	chr1:225575400-225577800	Weak transcription	Stomach Smooth Muscle	stomach
17	chr1:225575600-225588200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr1:225576000-225583600	Weak transcription	Primary hematopoietic stem cells	blood
19	chr1:225576200-225577400	Weak transcription	Thymus	Thymus
20	chr1:225576200-225577800	Weak transcription	Fetal Brain Female	brain
21	chr1:225576200-225583800	Weak transcription	Primary B cells from cord blood	blood
22	chr1:225576200-225585000	Weak transcription	Fetal Stomach	stomach
23	chr1:225576200-225585200	Weak transcription	Osteobl	bone
24	chr1:225576200-225594400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
25	chr1:225576400-225583400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr1:225576400-225583600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr1:225576400-225585000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
28	chr1:225576400-225586000	Weak transcription	Cortex derived primary cultured neurospheres	brain
29	chr1:225576400-225586000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr1:225576600-225582200	Weak transcription	Primary neutrophils fromperipheralblood	blood
31	chr1:225576600-225588600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr1:225576800-225583800	Weak transcription	Sigmoid Colon	Sigmoid Colon
33	chr1:225576800-225585000	Weak transcription	Lung	lung

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