Variant report

Variant	rs61828142
Chromosome Location	chr1:174875216-174875217
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:174873499..174877029-chr1:174967125..174970302,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000116161	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10436863	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12083837	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1653626	0.80[EUR][1000 genomes]
rs1653627	0.82[EUR][1000 genomes]
rs1653632	0.85[EUR][1000 genomes]
rs1754349	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1754351	0.80[EUR][1000 genomes]
rs1754355	0.84[EUR][1000 genomes]
rs1793297	0.83[EUR][1000 genomes]
rs1793300	0.81[EUR][1000 genomes]
rs1793309	0.87[EUR][1000 genomes]
rs2187562	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2981894	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2987869	0.87[EUR][1000 genomes]
rs2987874	0.82[EUR][1000 genomes]
rs3018410	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3118980	0.80[EUR][1000 genomes]
rs3133270	0.86[EUR][1000 genomes]
rs332771	0.80[EUR][1000 genomes]
rs332789	0.81[EUR][1000 genomes]
rs4233195	0.85[EUR][1000 genomes]
rs461910	0.80[EUR][1000 genomes]
rs4651238	0.89[AFR][1000 genomes];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs55741955	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61828140	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6425305	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6656665	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6665216	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs66700013	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7538588	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7545910	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9700904	0.82[EUR][1000 genomes]
rs9804056	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[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	esv2755184	chr1:174388343-174970343	Flanking Active TSS Weak transcription Enhancers Strong transcription Transcr. at gene 5' and 3' Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	54 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:174844800-174877400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr1:174856800-174876400	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr1:174861400-174876200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr1:174861400-174902400	Weak transcription	Left Ventricle	heart
5	chr1:174862800-174882400	Weak transcription	Fetal Lung	lung
6	chr1:174863200-174883200	Weak transcription	Small Intestine	intestine
7	chr1:174863400-174881400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
8	chr1:174863800-174876000	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr1:174863800-174883000	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr1:174864200-174882000	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr1:174869600-174877600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
12	chr1:174870000-174877600	Weak transcription	Brain Anterior Caudate	brain
13	chr1:174871800-174878400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr1:174871800-174882000	Strong transcription	HUES48 Cell Line	embryonic stem cell
15	chr1:174872000-174875600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr1:174872000-174885800	Weak transcription	Pancreas	Pancrea
17	chr1:174872000-174886000	Weak transcription	Gastric	stomach
18	chr1:174872000-174889200	Weak transcription	Primary B cells from cord blood	blood
19	chr1:174872200-174882600	Weak transcription	Stomach Mucosa	stomach
20	chr1:174872400-174888800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr1:174872800-174900400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr1:174873200-174876800	ZNF genes & repeats	Fetal Intestine Small	intestine
23	chr1:174873400-174897200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
24	chr1:174873600-174875400	Strong transcription	H1 Cell Line	embryonic stem cell
25	chr1:174873600-174882000	Weak transcription	K562	blood
26	chr1:174873800-174875400	ZNF genes & repeats	Primary B cells from peripheral blood	blood
27	chr1:174874000-174875600	ZNF genes & repeats	Fetal Intestine Large	intestine
28	chr1:174874000-174910000	Weak transcription	H9 Cell Line	embryonic stem cell
29	chr1:174874200-174885400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
30	chr1:174874200-174885800	Weak transcription	Duodenum Mucosa	Duodenum
31	chr1:174874200-174938200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
32	chr1:174874800-174875400	ZNF genes & repeats	Fetal Stomach	stomach
33	chr1:174874800-174882600	Weak transcription	HUES64 Cell Line	embryonic stem cell
34	chr1:174875200-174876400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
35	chr1:174875200-174879200	Weak transcription	HUES6 Cell Line	embryonic stem cell

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