Variant report

Variant	rs13405344
Chromosome Location	chr2:114689611-114689612
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	POLR2A	chr2:114689468-114689888	K562	blood:	n/a	n/a
2	POLR2A	chr2:114689532-114689820	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr2:114683951..114686623-chr2:114687436..114690346,2	MCF-7	breast:
2	chr2:114647730..114649235-chr2:114687739..114690538,2	MCF-7	breast:
3	chr2:114668940..114671388-chr2:114686835..114689758,2	MCF-7	breast:

Variant related genes	Relation type
ACTR3	TF binding region
ENSG00000115091	Chromatin interaction

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:78)

rs_ID	r²[population]
rs10165272	1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[ASN][1000 genomes]
rs10167298	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10177263	1.00[ASN][1000 genomes]
rs10194568	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs10195630	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10201959	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10202134	1.00[ASN][1000 genomes]
rs10207551	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10207785	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10210324	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1022412	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs10496455	0.82[ASN][1000 genomes]
rs11123218	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11887418	0.97[ASN][1000 genomes]
rs11887772	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11889821	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11890727	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11893418	1.00[ASN][1000 genomes]
rs11896388	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11898729	0.80[ASN][1000 genomes]
rs11899049	0.90[CHB][hapmap];0.88[ASN][1000 genomes]
rs12464791	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12466572	0.98[ASN][1000 genomes]
rs12613877	0.99[ASN][1000 genomes]
rs12618683	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs12711790	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12711794	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13003655	0.84[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs13387553	0.97[ASN][1000 genomes]
rs13388876	0.80[ASN][1000 genomes]
rs13396086	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13396561	0.96[ASN][1000 genomes]
rs13405706	1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13418557	0.96[ASN][1000 genomes]
rs13422248	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1403402	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1467291	0.80[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.89[YRI][hapmap];0.84[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs1486800	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1504042	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs17045275	0.80[ASN][1000 genomes]
rs1916201	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2140263	0.89[CHB][hapmap]
rs2419080	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs3791736	0.83[ASN][1000 genomes]
rs3791737	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3791739	0.98[ASN][1000 genomes]
rs3791743	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4278937	0.92[ASN][1000 genomes]
rs4338971	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs55810358	1.00[ASN][1000 genomes]
rs6542177	0.88[CEU][hapmap];0.95[YRI][hapmap];0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs6542178	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6542181	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6542182	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6542184	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6542186	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6711858	0.98[ASN][1000 genomes]
rs6720853	1.00[CHB][hapmap];0.91[JPT][hapmap];0.90[ASN][1000 genomes]
rs6723415	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6726327	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6729412	0.97[ASN][1000 genomes]
rs6734273	0.85[ASN][1000 genomes]
rs6734839	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6738134	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6740934	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6743651	1.00[CHB][hapmap];0.84[ASN][1000 genomes]
rs6750503	0.96[ASN][1000 genomes]
rs6761646	1.00[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs7567097	1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7582072	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7585468	0.92[ASN][1000 genomes]
rs7595941	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7603501	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7603764	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9308686	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs996513	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap]
rs996514	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs996515	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:114652200-114700600	Weak transcription	Fetal Brain Male	brain
2	chr2:114653600-114734800	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr2:114662800-114690600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr2:114665400-114692800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr2:114667400-114700800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr2:114667800-114705000	Weak transcription	Esophagus	oesophagus
7	chr2:114668000-114690800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr2:114668200-114692600	Weak transcription	Skeletal Muscle Male	skeletal muscle
9	chr2:114668200-114695800	Weak transcription	Psoas Muscle	Psoas
10	chr2:114668200-114704800	Weak transcription	Gastric	stomach
11	chr2:114668400-114696200	Weak transcription	Small Intestine	intestine
12	chr2:114668400-114735000	Weak transcription	Stomach Mucosa	stomach
13	chr2:114668600-114692800	Weak transcription	Colon Smooth Muscle	Colon
14	chr2:114668800-114703200	Weak transcription	Brain Cingulate Gyrus	brain
15	chr2:114669400-114693400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr2:114670800-114693000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr2:114670800-114717400	Strong transcription	Fetal Thymus	thymus
18	chr2:114670800-114719000	Strong transcription	Dnd41	blood
19	chr2:114671000-114695000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr2:114671000-114704800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr2:114671000-114720000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr2:114671200-114692800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr2:114671200-114694000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr2:114672000-114723200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr2:114673000-114703000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
26	chr2:114674400-114715800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr2:114675000-114691600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
28	chr2:114676000-114706200	Weak transcription	Hela-S3	cervix
29	chr2:114676200-114696200	Weak transcription	Pancreas	Pancrea
30	chr2:114676200-114704800	Weak transcription	Spleen	Spleen
31	chr2:114676600-114691800	Weak transcription	Stomach Smooth Muscle	stomach
32	chr2:114676600-114695000	Weak transcription	Brain Hippocampus Middle	brain
33	chr2:114676600-114695800	Weak transcription	Brain Inferior Temporal Lobe	brain
34	chr2:114676600-114719800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
35	chr2:114676800-114691800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr2:114678200-114690200	Strong transcription	HUVEC	blood vessel
37	chr2:114679400-114693000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
38	chr2:114679800-114692800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr2:114680200-114703200	Strong transcription	Primary T cells fromperipheralblood	blood
40	chr2:114680400-114721200	Strong transcription	Primary neutrophils fromperipheralblood	blood
41	chr2:114681400-114695000	Strong transcription	Liver	Liver
42	chr2:114681600-114717600	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
43	chr2:114681600-114719400	Strong transcription	NH-A	brain
44	chr2:114681800-114722600	Strong transcription	Monocytes-CD14+_RO01746	blood
45	chr2:114682000-114694600	Strong transcription	Primary monocytes fromperipheralblood	blood
46	chr2:114682600-114693600	Strong transcription	Primary B cells from cord blood	blood
47	chr2:114682600-114723400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
48	chr2:114682600-114725000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
49	chr2:114682800-114690000	Strong transcription	HSMM	muscle
50	chr2:114683000-114715800	Strong transcription	HUES64 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links