Variant report

Variant	rs3770887
Chromosome Location	chr2:36663238-36663239
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:36581891..36584945-chr2:36659676..36663580,4	MCF-7	breast:
2	chr2:36655361..36657186-chr2:36662322..36664635,2	K562	blood:

Variant related genes	Relation type
ENSG00000150938	Chromatin interaction
ENSG00000260025	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs11124512	0.91[CHB][hapmap];0.91[JPT][hapmap]
rs11673762	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1477048	1.00[CEU][hapmap];0.99[EUR][1000 genomes]
rs17018688	0.86[CHB][hapmap];0.91[JPT][hapmap]
rs17018699	0.86[CHB][hapmap];0.95[JPT][hapmap];0.94[MEX][hapmap];0.85[TSI][hapmap]
rs17018723	0.86[CHB][hapmap];0.95[JPT][hapmap]
rs17018790	0.89[CEU][hapmap];0.95[EUR][1000 genomes]
rs17018798	1.00[CEU][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2276673	1.00[EUR][1000 genomes]
rs34439217	0.99[EUR][1000 genomes]
rs3770883	0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.80[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3770884	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3770885	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs3770886	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs3770888	1.00[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.81[GIH][hapmap];0.91[JPT][hapmap];1.00[MEX][hapmap];0.96[TSI][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3770891	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3770897	0.93[ASN][1000 genomes]
rs3770899	0.95[CHB][hapmap];0.95[CHD][hapmap];0.80[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.89[TSI][hapmap];0.93[ASN][1000 genomes]
rs3770910	0.91[CHB][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs3770914	0.89[CHB][hapmap];0.95[JPT][hapmap]
rs3770922	0.86[CHB][hapmap];0.90[JPT][hapmap];0.85[TSI][hapmap]
rs3770927	0.86[CHB][hapmap];0.95[JPT][hapmap]
rs3821157	1.00[CEU][hapmap];0.82[LWK][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3821164	0.86[CHB][hapmap];0.95[JPT][hapmap]
rs4670552	0.81[JPT][hapmap]
rs56036545	0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs57431226	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs58185473	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62136162	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6729186	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs7571902	1.00[CEU][hapmap];0.99[EUR][1000 genomes]
rs876458	0.86[CHB][hapmap];0.95[JPT][hapmap];0.85[TSI][hapmap]

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	nsv833803	chr2:36589065-36745779	Genic enhancers Enhancers Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:92 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:36640200-36680000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr2:36644400-36665600	Weak transcription	Gastric	stomach
3	chr2:36650600-36676600	Weak transcription	Stomach Mucosa	stomach
4	chr2:36651600-36668400	Weak transcription	Fetal Intestine Small	intestine
5	chr2:36651600-36668400	Weak transcription	Rectal Mucosa Donor 29	rectum
6	chr2:36651800-36668400	Weak transcription	Duodenum Mucosa	Duodenum
7	chr2:36651800-36686800	Weak transcription	Colonic Mucosa	Colon
8	chr2:36652200-36668600	Weak transcription	Primary B cells from cord blood	blood
9	chr2:36653000-36667800	Weak transcription	Primary hematopoietic stem cells	blood
10	chr2:36653400-36669400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr2:36657000-36665600	Genic enhancers	A549	lung
12	chr2:36658000-36668400	Weak transcription	Esophagus	oesophagus
13	chr2:36658400-36665400	Enhancers	NHDF-Ad	bronchial
14	chr2:36660400-36671800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr2:36660600-36666200	Weak transcription	Pancreas	Pancrea
16	chr2:36660600-36668200	Weak transcription	HUES6 Cell Line	embryonic stem cell
17	chr2:36660600-36668200	Weak transcription	Fetal Intestine Large	intestine
18	chr2:36660600-36668400	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr2:36660600-36668400	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr2:36660600-36668600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
21	chr2:36660600-36669600	Weak transcription	H1 Cell Line	embryonic stem cell
22	chr2:36660600-36669600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr2:36660600-36669800	Weak transcription	Brain Angular Gyrus	brain
24	chr2:36660600-36682600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr2:36660600-36683000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
26	chr2:36660800-36663400	Enhancers	NHLF	lung
27	chr2:36660800-36663600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr2:36660800-36664800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr2:36660800-36665600	Weak transcription	Placenta	Placenta
30	chr2:36660800-36665600	Weak transcription	Ovary	ovary
31	chr2:36660800-36665600	Weak transcription	Right Ventricle	heart
32	chr2:36660800-36666000	Weak transcription	Rectal Mucosa Donor 31	rectum
33	chr2:36660800-36666200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr2:36660800-36666200	Weak transcription	Lung	lung
35	chr2:36660800-36668000	Weak transcription	HUES64 Cell Line	embryonic stem cell
36	chr2:36660800-36668400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
37	chr2:36660800-36668400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr2:36660800-36668400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
39	chr2:36660800-36668400	Weak transcription	Placenta Amnion	Placenta Amnion
40	chr2:36660800-36668600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
41	chr2:36660800-36668600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
42	chr2:36660800-36668600	Weak transcription	Spleen	Spleen
43	chr2:36660800-36669600	Weak transcription	Fetal Muscle Trunk	muscle
44	chr2:36660800-36670000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
45	chr2:36660800-36670200	Weak transcription	Fetal Brain Female	brain
46	chr2:36660800-36678000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
47	chr2:36660800-36695600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
48	chr2:36661000-36665600	Enhancers	Muscle Satellite Cultured Cells	--
49	chr2:36661000-36665600	Weak transcription	Stomach Smooth Muscle	stomach
50	chr2:36661000-36665600	Weak transcription	Hela-S3	cervix

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links