Variant report

Variant	rs4668627
Chromosome Location	chr2:9798142-9798143
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:9771970..9774412-chr2:9797666..9799794,2	K562	blood:
2	chr2:9797605..9799669-chr2:9803320..9804886,2	MCF-7	breast:
3	chr2:9797495..9799232-chr2:9803127..9805069,2	K562	blood:
4	chr2:9782654..9789334-chr2:9794560..9799702,7	MCF-7	breast:
5	chr2:9796534..9798886-chr2:9908745..9911045,3	K562	blood:

Variant related genes	Relation type
ENSG00000243491	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10185981	0.99[ASN][1000 genomes]
rs12615784	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13418911	0.99[ASN][1000 genomes]
rs16867105	0.99[ASN][1000 genomes]
rs16867106	0.99[ASN][1000 genomes]
rs16867107	0.99[ASN][1000 genomes]
rs4622693	0.99[ASN][1000 genomes]
rs4669405	0.99[ASN][1000 genomes]
rs4669406	0.97[ASN][1000 genomes]
rs4669407	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55886075	0.95[ASN][1000 genomes]
rs58645709	0.99[ASN][1000 genomes]
rs61520432	0.93[ASN][1000 genomes]
rs66484704	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66493547	0.99[ASN][1000 genomes]
rs67630365	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67988353	0.99[ASN][1000 genomes]
rs68170954	0.99[ASN][1000 genomes]
rs72777064	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72777070	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7607750	0.99[ASN][1000 genomes]
rs7608996	0.99[ASN][1000 genomes]
rs951629	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv580915	chr2:9308148-9844178	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	70 gene(s)	inside rSNPs	diseases
2	nsv1011802	chr2:9766171-9808284	Enhancers Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
3	nsv527083	chr2:9797994-9810648	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:9790800-9799200	Weak transcription	H1 Cell Line	embryonic stem cell
2	chr2:9790800-9801000	Weak transcription	HUES6 Cell Line	embryonic stem cell
3	chr2:9792800-9801600	Weak transcription	Spleen	Spleen
4	chr2:9794200-9799400	Enhancers	HMEC	breast
5	chr2:9794400-9799600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr2:9794400-9800400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr2:9794600-9798400	Enhancers	NHDF-Ad	bronchial
8	chr2:9794600-9799600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr2:9794800-9799000	Weak transcription	Placenta	Placenta
10	chr2:9794800-9800400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr2:9795000-9798600	Weak transcription	Fetal Muscle Trunk	muscle
12	chr2:9795000-9799200	Enhancers	Osteobl	bone
13	chr2:9795400-9798200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr2:9795400-9798200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr2:9795400-9799200	Enhancers	HSMM	muscle
16	chr2:9795600-9799200	Enhancers	HSMMtube	muscle
17	chr2:9796200-9798200	Enhancers	Hela-S3	cervix
18	chr2:9796200-9798400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
19	chr2:9796600-9799600	Enhancers	Muscle Satellite Cultured Cells	--
20	chr2:9796800-9798200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
21	chr2:9796800-9799600	Enhancers	Fetal Muscle Leg	muscle
22	chr2:9797000-9798200	Enhancers	Ovary	ovary
23	chr2:9797000-9799400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr2:9797000-9799400	Enhancers	GM12878-XiMat	blood
25	chr2:9797000-9802400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr2:9797400-9798400	Enhancers	ES-I3 Cell Line	embryonic stem cell
27	chr2:9797400-9798400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
28	chr2:9797600-9798200	Bivalent Enhancer	HepG2	liver
29	chr2:9797600-9798800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr2:9797600-9798800	Weak transcription	NHEK	skin
31	chr2:9797600-9802200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
32	chr2:9797800-9808800	Weak transcription	Pancreas	Pancrea
33	chr2:9798000-9798200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr2:9798000-9798200	Enhancers	H9 Cell Line	embryonic stem cell
35	chr2:9798000-9798200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr2:9798000-9798400	Enhancers	HUES64 Cell Line	embryonic stem cell
37	chr2:9798000-9798400	Weak transcription	NH-A	brain
38	chr2:9798000-9799200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr2:9798000-9799400	Enhancers	A549	lung
40	chr2:9798000-9799600	Enhancers	Skeletal Muscle Female	skeletal muscle
41	chr2:9798000-9803200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links