Variant report

Variant	rs61778911
Chromosome Location	chr1:71534309-71534310
allele	A/G
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	chr1:71532953-71536248	HepG2	liver:	n/a	n/a
2	POLR2A	chr1:71518050-71545780	K562	blood:	n/a	n/a
3	RUNX3	chr1:71533973-71534406	GM12878	blood:	n/a	n/a
4	MEF2C	chr1:71534077-71534421	GM12878	blood:	n/a	chr1:71534255-71534276 chr1:71534261-71534272 chr1:71534255-71534276 chr1:71534262-71534271 chr1:71534273-71534294
5	MEF2A	chr1:71533937-71534480	GM12878	blood:	n/a	chr1:71534255-71534276 chr1:71534261-71534272 chr1:71534255-71534276 chr1:71534262-71534271 chr1:71534273-71534294
6	RUNX3	chr1:71534026-71534361	GM12878	blood:	n/a	n/a

Variant related genes	Relation type
MIR186	TF binding region
ZRANB2	TF binding region

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs1005748	0.97[AMR][1000 genomes]
rs1005749	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1008484	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10736414	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10789314	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10889906	1.00[ASN][1000 genomes]
rs10889907	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12119848	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12122320	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12126880	0.84[EUR][1000 genomes]
rs12131077	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12131515	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12142055	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12145536	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12145635	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1474663	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17542551	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1983587	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2050065	1.00[ASN][1000 genomes]
rs2206344	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2244018	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2247098	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2421732	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2744897	0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2744898	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2744899	0.84[AMR][1000 genomes]
rs2744900	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2744902	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2744905	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2744906	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2744907	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2744908	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2744916	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2744918	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2817857	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2817860	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3000466	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs493489	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs496216	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs508513	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs510414	0.83[EUR][1000 genomes]
rs532693	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs579558	0.84[EUR][1000 genomes]
rs584532	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs61777272	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs61777274	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs61778912	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6424415	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs651265	0.84[EUR][1000 genomes]
rs653699	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs657265	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6670515	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6679003	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6690000	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs72671088	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72671095	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7529930	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs847704	0.84[EUR][1000 genomes]
rs847705	0.84[EUR][1000 genomes]
rs847735	0.83[AMR][1000 genomes]
rs880099	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9970600	0.97[AMR][1000 genomes];1.00[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	nsv546472	chr1:71432984-71541003	Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	555 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:71515800-71541000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr1:71520000-71536800	Weak transcription	Aorta	Aorta
3	chr1:71520400-71534600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr1:71520600-71544600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr1:71521400-71544200	Strong transcription	Adipose Nuclei	Adipose
6	chr1:71521600-71536800	Weak transcription	Stomach Mucosa	stomach
7	chr1:71521800-71544600	Strong transcription	HSMM	muscle
8	chr1:71522000-71534400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr1:71522000-71543800	Strong transcription	Primary B cells from cord blood	blood
10	chr1:71522000-71544200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr1:71522000-71544200	Strong transcription	HUES64 Cell Line	embryonic stem cell
12	chr1:71522000-71544200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr1:71522000-71544400	Strong transcription	HMEC	breast
14	chr1:71522200-71540800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr1:71522200-71544200	Strong transcription	Muscle Satellite Cultured Cells	--
16	chr1:71522200-71544600	Strong transcription	Primary monocytes fromperipheralblood	blood
17	chr1:71522400-71544200	Strong transcription	Liver	Liver
18	chr1:71522600-71544200	Strong transcription	Rectal Mucosa Donor 29	rectum
19	chr1:71522600-71544200	Strong transcription	Monocytes-CD14+_RO01746	blood
20	chr1:71522600-71544400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
21	chr1:71522600-71544400	Strong transcription	NH-A	brain
22	chr1:71522800-71540400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr1:71522800-71544400	Strong transcription	Fetal Thymus	thymus
24	chr1:71522800-71544600	Strong transcription	HUES6 Cell Line	embryonic stem cell
25	chr1:71522800-71544600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr1:71523000-71543800	Strong transcription	Duodenum Mucosa	Duodenum
27	chr1:71523000-71544400	Strong transcription	Osteobl	bone
28	chr1:71523000-71544600	Strong transcription	HUES48 Cell Line	embryonic stem cell
29	chr1:71523000-71544600	Strong transcription	Placenta	Placenta
30	chr1:71523200-71540600	Strong transcription	Dnd41	blood
31	chr1:71523200-71542800	Strong transcription	K562	blood
32	chr1:71523200-71544200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr1:71523200-71544400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
34	chr1:71523400-71537200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr1:71523400-71544600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
36	chr1:71523600-71535400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr1:71523600-71544000	Strong transcription	Primary neutrophils fromperipheralblood	blood
38	chr1:71523600-71544200	Strong transcription	Primary B cells from peripheral blood	blood
39	chr1:71523600-71544800	Strong transcription	Primary T cells fromperipheralblood	blood
40	chr1:71523600-71544800	Strong transcription	Fetal Lung	lung
41	chr1:71523800-71535400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
42	chr1:71523800-71544000	Strong transcription	Duodenum Smooth Muscle	Duodenum
43	chr1:71523800-71544400	Strong transcription	Rectal Mucosa Donor 31	rectum
44	chr1:71524000-71542200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr1:71524400-71535000	Strong transcription	HSMMtube	muscle
46	chr1:71524400-71538600	Strong transcription	Stomach Smooth Muscle	stomach
47	chr1:71524400-71541000	Strong transcription	Primary T helper cells PMA-I stimulated	--
48	chr1:71524400-71541600	Strong transcription	Primary T helper cells fromperipheralblood	blood
49	chr1:71524400-71542200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
50	chr1:71524400-71544400	Strong transcription	Skeletal Muscle Female	skeletal muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links