Variant report

Variant	rs61792503
Chromosome Location	chr4:3111961-3111962
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr4:3074016..3078502-chr4:3111809..3117809,7	MCF-7	breast:
2	chr4:3108607..3111576-chr4:3111924..3115873,4	MCF-7	breast:
3	chr4:3110448..3112382-chr4:3193670..3195664,2	MCF-7	breast:
4	chr4:3111007..3113518-chr4:3531842..3533889,2	MCF-7	breast:
5	chr4:3101999..3103736-chr4:3111886..3114032,2	MCF-7	breast:
6	chr4:3111872..3117206-chr4:3129314..3133133,7	MCF-7	breast:
7	chr4:3075012..3079488-chr4:3111729..3116028,6	MCF-7	breast:
8	chr4:3110927..3117533-chr4:3461507..3465762,15	MCF-7	breast:
9	chr4:3110166..3112749-chr4:3184867..3187670,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000197386	Chromatin interaction
ENSG00000251075	Chromatin interaction
ENSG00000175920	Chromatin interaction
ENSG00000163956	Chromatin interaction

Extended variants
information (count: 77 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs10021254	1.00[ASN][1000 genomes]
rs10034669	1.00[ASN][1000 genomes]
rs10155264	1.00[ASN][1000 genomes]
rs10488840	1.00[ASN][1000 genomes]
rs1065745	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16843803	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16843824	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16844026	1.00[ASN][1000 genomes]
rs16844028	1.00[ASN][1000 genomes]
rs17780617	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2003530	1.00[ASN][1000 genomes]
rs28436280	1.00[ASN][1000 genomes]
rs28507598	1.00[ASN][1000 genomes]
rs28643391	1.00[ASN][1000 genomes]
rs3025825	1.00[ASN][1000 genomes]
rs3025849	1.00[EUR][1000 genomes]
rs3025851	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34045730	1.00[ASN][1000 genomes]
rs34591077	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs362269	1.00[ASN][1000 genomes]
rs362278	1.00[ASN][1000 genomes]
rs362303	1.00[ASN][1000 genomes]
rs362304	1.00[ASN][1000 genomes]
rs362305	1.00[ASN][1000 genomes]
rs362310	1.00[ASN][1000 genomes]
rs362323	1.00[ASN][1000 genomes]
rs362325	1.00[ASN][1000 genomes]
rs363065	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs363067	1.00[EUR][1000 genomes]
rs363068	1.00[EUR][1000 genomes]
rs363069	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs363071	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs363074	1.00[EUR][1000 genomes]
rs363078	1.00[ASN][1000 genomes]
rs363084	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs363087	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs363089	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs363094	1.00[ASN][1000 genomes]
rs363095	1.00[ASN][1000 genomes]
rs363103	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs363104	0.84[EUR][1000 genomes]
rs363105	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs363128	1.00[ASN][1000 genomes]
rs56794194	1.00[ASN][1000 genomes]
rs57196404	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59588638	1.00[ASN][1000 genomes]
rs61460614	1.00[ASN][1000 genomes]
rs61583241	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61790489	1.00[ASN][1000 genomes]
rs61790490	1.00[ASN][1000 genomes]
rs61792472	0.95[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61792477	1.00[ASN][1000 genomes]
rs61792500	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61792501	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61792502	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61792505	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61792507	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61792508	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61792509	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61792510	1.00[ASN][1000 genomes]
rs61792512	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs61792515	0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs61792531	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61792532	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61792533	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73073018	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7440822	0.95[AFR][1000 genomes]
rs7674122	1.00[ASN][1000 genomes]
rs7683309	1.00[ASN][1000 genomes]
rs7686771	1.00[ASN][1000 genomes]
rs7692292	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7699037	1.00[ASN][1000 genomes]
rs9993781	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3418626	chr4:2741174-3461492	Genic enhancers Weak transcription Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
2	esv3397632	chr4:2741239-3460583	Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
3	nsv461163	chr4:2906285-3234980	Enhancers Strong transcription Flanking Active TSS Genic enhancers Weak transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	52 gene(s)	inside rSNPs	diseases
4	nsv593437	chr4:2906285-3234980	Genic enhancers Active TSS Strong transcription Enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	52 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:3078600-3113800	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr4:3080000-3117800	Weak transcription	Small Intestine	intestine
3	chr4:3088200-3164200	Strong transcription	Primary monocytes fromperipheralblood	blood
4	chr4:3094400-3123400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
5	chr4:3097200-3143400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr4:3097200-3162200	Strong transcription	HUES64 Cell Line	embryonic stem cell
7	chr4:3097400-3163800	Strong transcription	HUES48 Cell Line	embryonic stem cell
8	chr4:3098000-3162600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr4:3099800-3114400	Strong transcription	HUES6 Cell Line	embryonic stem cell
10	chr4:3100000-3159400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr4:3100400-3112000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr4:3101000-3113000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr4:3101000-3113800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
14	chr4:3101000-3120600	Strong transcription	Fetal Stomach	stomach
15	chr4:3101000-3122600	Strong transcription	Primary T helper cells fromperipheralblood	blood
16	chr4:3101000-3124200	Strong transcription	Fetal Intestine Large	intestine
17	chr4:3101000-3124400	Strong transcription	Thymus	Thymus
18	chr4:3101600-3124200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr4:3101800-3114400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
20	chr4:3104800-3115200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
21	chr4:3105400-3123800	Strong transcription	Rectal Mucosa Donor 29	rectum
22	chr4:3105400-3124800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr4:3105800-3113200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
24	chr4:3105800-3115400	Strong transcription	H1 Cell Line	embryonic stem cell
25	chr4:3105800-3121400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
26	chr4:3106200-3113400	Strong transcription	Fetal Muscle Leg	muscle
27	chr4:3106400-3112400	Strong transcription	Brain Angular Gyrus	brain
28	chr4:3106400-3115400	Strong transcription	Fetal Lung	lung
29	chr4:3106400-3123400	Strong transcription	Primary T cells from cord blood	blood
30	chr4:3106400-3123800	Strong transcription	Fetal Thymus	thymus
31	chr4:3106400-3145000	Strong transcription	Dnd41	blood
32	chr4:3106600-3115600	Strong transcription	Fetal Brain Female	brain
33	chr4:3106800-3125200	Strong transcription	Primary B cells from cord blood	blood
34	chr4:3107000-3114200	Strong transcription	HepG2	liver
35	chr4:3108000-3113200	Weak transcription	Gastric	stomach
36	chr4:3108400-3119600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
37	chr4:3108400-3123000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
38	chr4:3108600-3115200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
39	chr4:3108600-3125800	Strong transcription	Primary B cells from peripheral blood	blood
40	chr4:3108600-3136600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
41	chr4:3108600-3163000	Strong transcription	Monocytes-CD14+_RO01746	blood
42	chr4:3108800-3114000	Strong transcription	Brain Cingulate Gyrus	brain
43	chr4:3108800-3115200	Strong transcription	Cortex derived primary cultured neurospheres	brain
44	chr4:3108800-3115800	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
45	chr4:3108800-3120600	Strong transcription	Fetal Intestine Small	intestine
46	chr4:3108800-3123600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
47	chr4:3108800-3164600	Strong transcription	Primary neutrophils fromperipheralblood	blood
48	chr4:3109000-3112800	Strong transcription	A549	lung
49	chr4:3109000-3114800	Strong transcription	Primary T killer naive cells fromperipheralblood	blood
50	chr4:3109000-3115000	Strong transcription	Brain Inferior Temporal Lobe	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links