Variant report

Variant	rs4768671
Chromosome Location	chr12:46352563-46352564
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:10562281..10562799-chr12:46352551..46353071,2	Hela-S3	cervix:
2	chr12:46351854..46356298-chr12:46382487..46386006,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000110315	Chromatin interaction
ENSG00000139218	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs1291625	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1291628	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1366023	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1427749	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17712809	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17774927	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs183646	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2059405	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2114844	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2188119	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2408436	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs247927	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35123	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35124	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4768662	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs6582578	1.00[CEU][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7299892	0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7309711	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73097319	0.81[ASN][1000 genomes]
rs764192	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7961085	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7973329	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs875493	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs975444	0.88[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	nsv832397	chr12:46265990-46453733	Strong transcription ZNF genes & repeats Weak transcription Enhancers Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
2	esv3439887	chr12:46337377-46370366	Enhancers Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:46299000-46381000	Weak transcription	Brain Germinal Matrix	brain
2	chr12:46319200-46362800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr12:46322600-46360200	Weak transcription	Fetal Brain Male	brain
4	chr12:46326600-46360400	Weak transcription	Small Intestine	intestine
5	chr12:46329800-46371000	Weak transcription	Brain Cingulate Gyrus	brain
6	chr12:46330400-46358800	Strong transcription	Monocytes-CD14+_RO01746	blood
7	chr12:46338200-46356000	Weak transcription	Fetal Brain Female	brain
8	chr12:46338800-46359800	Weak transcription	Brain Angular Gyrus	brain
9	chr12:46338800-46360000	Weak transcription	Brain Hippocampus Middle	brain
10	chr12:46338800-46360000	Weak transcription	Brain Substantia Nigra	brain
11	chr12:46340000-46356600	Weak transcription	Brain Anterior Caudate	brain
12	chr12:46341600-46355200	Weak transcription	HMEC	breast
13	chr12:46341800-46365600	Weak transcription	K562	blood
14	chr12:46342000-46355200	Weak transcription	Esophagus	oesophagus
15	chr12:46342000-46356600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr12:46342000-46358400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr12:46342000-46360400	Weak transcription	Ovary	ovary
18	chr12:46342000-46360800	Weak transcription	Lung	lung
19	chr12:46342000-46362400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr12:46342000-46362400	Weak transcription	Fetal Muscle Leg	muscle
21	chr12:46342000-46362400	Weak transcription	Pancreas	Pancrea
22	chr12:46342000-46363000	Weak transcription	Fetal Stomach	stomach
23	chr12:46342000-46364000	Weak transcription	Gastric	stomach
24	chr12:46342200-46353600	Weak transcription	Skeletal Muscle Male	skeletal muscle
25	chr12:46342200-46356200	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr12:46342200-46356600	Weak transcription	Placenta Amnion	Placenta Amnion
27	chr12:46342200-46358800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
28	chr12:46342200-46359200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
29	chr12:46342200-46359800	Weak transcription	NHLF	lung
30	chr12:46342200-46360200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr12:46342200-46361000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr12:46342200-46365200	Weak transcription	Sigmoid Colon	Sigmoid Colon
33	chr12:46342200-46369000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr12:46342400-46353000	Weak transcription	Rectal Smooth Muscle	rectum
35	chr12:46342400-46353600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
36	chr12:46342400-46355000	Weak transcription	Cortex derived primary cultured neurospheres	brain
37	chr12:46342400-46360200	Weak transcription	Colonic Mucosa	Colon
38	chr12:46342600-46355600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
39	chr12:46342600-46355600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
40	chr12:46342600-46355600	Weak transcription	HUVEC	blood vessel
41	chr12:46342600-46356400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr12:46342800-46353000	Weak transcription	NHDF-Ad	bronchial
43	chr12:46342800-46353200	Weak transcription	Duodenum Smooth Muscle	Duodenum
44	chr12:46342800-46355600	Weak transcription	NH-A	brain
45	chr12:46342800-46356600	Weak transcription	Muscle Satellite Cultured Cells	--
46	chr12:46342800-46361400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
47	chr12:46342800-46362400	Weak transcription	Stomach Smooth Muscle	stomach
48	chr12:46343000-46352600	Weak transcription	A549	lung
49	chr12:46343000-46353000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
50	chr12:46343000-46353600	Weak transcription	HUES48 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links