Variant report

Variant	rs6540836
Chromosome Location	chr1:214639641-214639642
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	ZNF384	chr1:214639579-214639651	GM12878	blood:	n/a	n/a

Variant related genes	Relation type
PTPN14	TF binding region

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10746445	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10746446	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10864101	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10864102	1.00[CHB][hapmap];0.82[JPT][hapmap]
rs10864103	0.84[CHB][hapmap]
rs11120321	1.00[CEU][hapmap]
rs11120329	1.00[CHB][hapmap];0.92[JPT][hapmap]
rs11120330	1.00[CHB][hapmap];0.92[JPT][hapmap]
rs11120334	0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12068677	1.00[CHB][hapmap]
rs12128034	1.00[CHB][hapmap]
rs12743237	1.00[CHB][hapmap];0.92[JPT][hapmap]
rs17023030	0.91[CHB][hapmap]
rs4130486	0.82[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4233302	0.84[CHB][hapmap]
rs4233304	0.84[CHB][hapmap]
rs4233305	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4233307	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4253891	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4269744	0.84[CHB][hapmap]
rs4284238	0.84[CHB][hapmap]
rs4301608	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4421564	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4451529	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4465172	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4474219	0.84[CHB][hapmap]
rs4539105	0.87[CEU][hapmap];0.91[CHB][hapmap];0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4655250	1.00[CHB][hapmap]
rs4655251	1.00[CHB][hapmap]
rs4655252	1.00[CHB][hapmap]
rs4655253	1.00[CHB][hapmap]
rs4655254	1.00[CHB][hapmap];0.92[JPT][hapmap]
rs4655255	1.00[CHB][hapmap]
rs4655259	0.84[CHB][hapmap]
rs4655347	1.00[CHB][hapmap]
rs4655350	0.84[CHB][hapmap]
rs4655351	0.84[CHB][hapmap]
rs5020616	1.00[CHB][hapmap];0.92[JPT][hapmap]
rs5020617	1.00[CHB][hapmap];0.92[JPT][hapmap]
rs6540831	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6540835	1.00[CHB][hapmap];0.92[JPT][hapmap]
rs6540838	0.84[CHB][hapmap]
rs6540839	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6540840	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6665797	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6668440	1.00[CHB][hapmap];0.92[JPT][hapmap]
rs6676807	0.84[CHB][hapmap]
rs6682847	0.83[CHB][hapmap]
rs6682987	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6685434	0.84[CHB][hapmap]
rs6689084	0.84[CHB][hapmap]
rs7518513	1.00[CHB][hapmap]
rs7525020	0.84[CHB][hapmap]
rs7528679	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7528775	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7528800	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7531610	0.84[CHB][hapmap]
rs7535598	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7537159	0.85[ASN][1000 genomes]
rs7537274	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7555415	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]

No data

Chromatin state (count:69 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:214613000-214649400	Weak transcription	Lung	lung
2	chr1:214621000-214639800	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr1:214625800-214644800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr1:214627200-214640000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr1:214628600-214640600	Weak transcription	Right Atrium	heart
6	chr1:214629200-214644800	Weak transcription	Psoas Muscle	Psoas
7	chr1:214634200-214640000	Weak transcription	Fetal Kidney	kidney
8	chr1:214634400-214639800	Weak transcription	Fetal Lung	lung
9	chr1:214634400-214639800	Weak transcription	A549	lung
10	chr1:214634400-214640000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr1:214634400-214644400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr1:214634400-214645000	Weak transcription	HUVEC	blood vessel
13	chr1:214634400-214646200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr1:214634800-214640000	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr1:214635800-214645000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr1:214636200-214640600	Weak transcription	Sigmoid Colon	Sigmoid Colon
17	chr1:214637000-214639800	Weak transcription	NH-A	brain
18	chr1:214637000-214640200	Weak transcription	Skeletal Muscle Male	skeletal muscle
19	chr1:214637200-214639800	Weak transcription	Fetal Muscle Leg	muscle
20	chr1:214637200-214640000	Weak transcription	NHDF-Ad	bronchial
21	chr1:214637200-214645000	Weak transcription	Esophagus	oesophagus
22	chr1:214637400-214641400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr1:214637800-214640800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr1:214638000-214639800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
25	chr1:214638000-214639800	Weak transcription	HUES64 Cell Line	embryonic stem cell
26	chr1:214638200-214639800	Weak transcription	H9 Cell Line	embryonic stem cell
27	chr1:214638200-214639800	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr1:214638200-214639800	Weak transcription	Adipose Nuclei	Adipose
29	chr1:214638200-214639800	Weak transcription	Fetal Intestine Small	intestine
30	chr1:214638200-214639800	Weak transcription	Ovary	ovary
31	chr1:214638200-214639800	Weak transcription	Skeletal Muscle Female	skeletal muscle
32	chr1:214638200-214640000	Weak transcription	Fetal Intestine Large	intestine
33	chr1:214638200-214640000	Weak transcription	Pancreas	Pancrea
34	chr1:214638200-214640200	Weak transcription	Stomach Smooth Muscle	stomach
35	chr1:214638200-214642200	Weak transcription	HUES6 Cell Line	embryonic stem cell
36	chr1:214638200-214644400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
37	chr1:214638200-214644400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr1:214638200-214645400	Weak transcription	Left Ventricle	heart
39	chr1:214638200-214645600	Weak transcription	Fetal Muscle Trunk	muscle
40	chr1:214638200-214645800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
41	chr1:214638200-214647400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
42	chr1:214638200-214649200	Weak transcription	Aorta	Aorta
43	chr1:214638400-214639800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
44	chr1:214638400-214639800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
45	chr1:214638400-214639800	Weak transcription	Placenta	Placenta
46	chr1:214638400-214639800	Weak transcription	HSMMtube	muscle
47	chr1:214638400-214640000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
48	chr1:214638400-214640000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr1:214638400-214640000	Weak transcription	Fetal Stomach	stomach
50	chr1:214638400-214640200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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