Variant report

Variant	rs57703319
Chromosome Location	chr3:100073725-100073726
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:100073604..100075346-chr3:100078489..100080279,2	K562	blood:
2	chr3:100069327..100070989-chr3:100072789..100075380,2	K562	blood:
3	chr3:100073102..100074606-chr3:100074861..100076562,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000273488	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs11918399	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11919543	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11919627	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16842142	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3772687	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs55699261	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs55864663	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56012915	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56956506	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs57155242	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs57166766	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs57332305	0.80[AFR][1000 genomes];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59304656	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs59396265	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs59491720	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59507591	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs59509062	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60463428	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60999188	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72941434	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72941452	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72941453	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72941454	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72941473	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72941482	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9873033	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916476	chr3:99478229-100124625	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
2	nsv1003924	chr3:99933762-100112690	Strong transcription Weak transcription Enhancers Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 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	chr3:100054200-100081000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:100054600-100102600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr3:100054800-100081000	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr3:100054800-100097200	Weak transcription	Stomach Mucosa	stomach
5	chr3:100054800-100102200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr3:100055000-100082400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr3:100069400-100082400	Weak transcription	Fetal Brain Male	brain
8	chr3:100069600-100080600	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr3:100069600-100083800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
10	chr3:100069600-100085800	Weak transcription	Small Intestine	intestine
11	chr3:100069600-100087000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
12	chr3:100071000-100074000	Strong transcription	Rectal Mucosa Donor 31	rectum
13	chr3:100071000-100074600	Strong transcription	Primary T helper cells PMA-I stimulated	--
14	chr3:100071000-100074800	Strong transcription	Fetal Brain Female	brain
15	chr3:100071000-100075000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr3:100071000-100075000	Strong transcription	Stomach Smooth Muscle	stomach
17	chr3:100071000-100075200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
18	chr3:100071000-100075200	Strong transcription	Fetal Thymus	thymus
19	chr3:100071000-100075400	Strong transcription	HUES6 Cell Line	embryonic stem cell
20	chr3:100071000-100075400	Strong transcription	Primary neutrophils fromperipheralblood	blood
21	chr3:100071000-100075400	Strong transcription	Primary B cells from cord blood	blood
22	chr3:100071000-100075400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr3:100071000-100075400	Strong transcription	Placenta	Placenta
24	chr3:100071000-100075600	Strong transcription	Primary T cells from cord blood	blood
25	chr3:100071000-100075800	Strong transcription	GM12878-XiMat	blood
26	chr3:100071000-100076400	Strong transcription	Rectal Mucosa Donor 29	rectum
27	chr3:100071000-100076400	Strong transcription	HSMM	muscle
28	chr3:100071000-100077600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr3:100071000-100080800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr3:100071000-100087800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
31	chr3:100071000-100087800	Strong transcription	Fetal Muscle Trunk	muscle
32	chr3:100071000-100093600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
33	chr3:100071000-100103200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr3:100071000-100104400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr3:100071200-100073800	Strong transcription	Aorta	Aorta
36	chr3:100071200-100073800	Strong transcription	Brain Anterior Caudate	brain
37	chr3:100071200-100073800	Strong transcription	Gastric	stomach
38	chr3:100071200-100073800	Strong transcription	Rectal Smooth Muscle	rectum
39	chr3:100071200-100074000	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
40	chr3:100071200-100074000	Strong transcription	Colonic Mucosa	Colon
41	chr3:100071200-100074200	Strong transcription	Brain Inferior Temporal Lobe	brain
42	chr3:100071200-100074400	Strong transcription	Colon Smooth Muscle	Colon
43	chr3:100071200-100074600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
44	chr3:100071200-100074600	Strong transcription	Psoas Muscle	Psoas
45	chr3:100071200-100074600	Strong transcription	Spleen	Spleen
46	chr3:100071200-100074800	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
47	chr3:100071200-100074800	Strong transcription	Brain Hippocampus Middle	brain
48	chr3:100071200-100074800	Strong transcription	HMEC	breast
49	chr3:100071200-100075000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
50	chr3:100071200-100075000	Strong transcription	Fetal Stomach	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links