Variant report

Variant	rs55990645
Chromosome Location	chr3:49405348-49405349
allele	A/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	POLR2A	chr3:49405339-49406024	GM12878	blood:	n/a	n/a

Variant related genes	Relation type
RHOA-IT1	TF binding region

Extended variants
information (count: 81 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:81)

rs_ID	r²[population]
rs11130201	0.86[AFR][1000 genomes]
rs11717485	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1522929	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1568663	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17080495	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17080510	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17080567	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17080664	0.89[AFR][1000 genomes]
rs1996874	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2131107	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2311794	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2311801	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2329024	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs28615670	1.00[EUR][1000 genomes]
rs3870334	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs3870340	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs3912831	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs4241409	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4452334	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4527417	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4855856	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs4855857	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs4855870	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4855872	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs4855874	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4855875	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4855876	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4855878	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4855879	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55808753	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56101322	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56760510	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56897974	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58998762	1.00[EUR][1000 genomes]
rs59579780	0.84[AFR][1000 genomes]
rs60011446	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61744082	1.00[EUR][1000 genomes]
rs61749312	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6446269	0.95[AFR][1000 genomes]
rs6446270	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6446271	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6446273	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6446276	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6446278	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6446279	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6446280	0.89[AFR][1000 genomes]
rs6446281	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6446282	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6446283	1.00[EUR][1000 genomes]
rs6766297	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6787665	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6793124	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6797164	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72936810	1.00[EUR][1000 genomes]
rs72936890	1.00[EUR][1000 genomes]
rs73830703	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73830704	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73830705	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73830706	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73831434	1.00[EUR][1000 genomes]
rs73831435	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73831436	1.00[EUR][1000 genomes]
rs73831437	1.00[EUR][1000 genomes]
rs73831438	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73831439	0.84[AFR][1000 genomes]
rs73831440	0.84[AFR][1000 genomes]
rs73831441	0.84[AFR][1000 genomes]
rs73831442	0.89[AFR][1000 genomes]
rs73833525	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7646393	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs8179172	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9311441	0.97[AFR][1000 genomes]
rs9811460	1.00[EUR][1000 genomes]
rs9814413	1.00[EUR][1000 genomes]
rs9830627	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9837396	1.00[EUR][1000 genomes]
rs9849446	1.00[EUR][1000 genomes]
rs9861805	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9869504	1.00[EUR][1000 genomes]
rs9875203	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9877045	1.00[EUR][1000 genomes]

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:49396400-49413600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr3:49396400-49418600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr3:49396600-49406200	Strong transcription	Rectal Smooth Muscle	rectum
4	chr3:49396600-49410200	Weak transcription	Psoas Muscle	Psoas
5	chr3:49396600-49413200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr3:49396600-49413200	Strong transcription	Fetal Muscle Trunk	muscle
7	chr3:49396600-49413800	Strong transcription	Primary B cells from peripheral blood	blood
8	chr3:49396600-49414400	Weak transcription	Fetal Brain Male	brain
9	chr3:49396800-49406000	Strong transcription	Cortex derived primary cultured neurospheres	brain
10	chr3:49396800-49406000	Strong transcription	Skeletal Muscle Male	skeletal muscle
11	chr3:49396800-49406200	Strong transcription	Stomach Smooth Muscle	stomach
12	chr3:49396800-49408000	Strong transcription	Primary T cells fromperipheralblood	blood
13	chr3:49396800-49410800	Strong transcription	Primary neutrophils fromperipheralblood	blood
14	chr3:49396800-49412800	Strong transcription	Primary T helper cells fromperipheralblood	blood
15	chr3:49396800-49413200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
16	chr3:49396800-49413400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
17	chr3:49396800-49413400	Strong transcription	Thymus	Thymus
18	chr3:49396800-49413600	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr3:49396800-49438800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr3:49397000-49406000	Strong transcription	H1 Cell Line	embryonic stem cell
21	chr3:49397000-49406200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
22	chr3:49397000-49406400	Strong transcription	HUES48 Cell Line	embryonic stem cell
23	chr3:49397000-49408000	Strong transcription	Primary T helper cells PMA-I stimulated	--
24	chr3:49397000-49412800	Strong transcription	Lung	lung
25	chr3:49397000-49413000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr3:49397000-49413200	Strong transcription	Adipose Nuclei	Adipose
27	chr3:49397000-49415200	Strong transcription	Fetal Stomach	stomach
28	chr3:49397200-49406000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr3:49397200-49406400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr3:49397200-49413400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr3:49397200-49423800	Weak transcription	Fetal Heart	heart
32	chr3:49397400-49410400	Strong transcription	Monocytes-CD14+_RO01746	blood
33	chr3:49397400-49410600	Strong transcription	Primary monocytes fromperipheralblood	blood
34	chr3:49397400-49411200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr3:49397400-49413200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
36	chr3:49397400-49413200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr3:49397400-49413400	Strong transcription	Fetal Intestine Large	intestine
38	chr3:49397400-49413400	Strong transcription	Fetal Muscle Leg	muscle
39	chr3:49397400-49413400	Strong transcription	Placenta	Placenta
40	chr3:49397400-49416400	Strong transcription	Fetal Intestine Small	intestine
41	chr3:49397600-49406000	Strong transcription	Liver	Liver
42	chr3:49397600-49413200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
43	chr3:49397600-49413200	Strong transcription	Spleen	Spleen
44	chr3:49397600-49413600	Strong transcription	HUES6 Cell Line	embryonic stem cell
45	chr3:49397800-49405600	Weak transcription	Brain Angular Gyrus	brain
46	chr3:49397800-49406200	Strong transcription	HUES64 Cell Line	embryonic stem cell
47	chr3:49397800-49409000	Weak transcription	Fetal Kidney	kidney
48	chr3:49397800-49413200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
49	chr3:49397800-49413600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
50	chr3:49397800-49413800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

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