Variant report

Variant	rs7607346
Chromosome Location	chr2:47215662-47215663
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:17)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:17 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr2:47213870..47217482-chr2:47217996..47221953,5	MCF-7	breast:
2	chr2:47214296..47216240-chr2:47260136..47264108,3	MCF-7	breast:
3	chr2:47214073..47216296-chr2:47255513..47257887,2	MCF-7	breast:
4	chr2:47213500..47216240-chr2:47548901..47552350,5	K562	blood:
5	chr2:47141714..47144704-chr2:47213169..47216343,3	MCF-7	breast:
6	chr2:47166662..47168239-chr2:47214409..47216366,2	MCF-7	breast:
7	chr2:47211199..47217347-chr2:47399008..47404700,12	K562	blood:
8	chr2:47214279..47216434-chr2:47222625..47224948,2	MCF-7	breast:
9	chr2:47168191..47171177-chr2:47214556..47217322,3	MCF-7	breast:
10	chr2:47209205..47217024-chr2:47399516..47404811,13	MCF-7	breast:
11	chr2:47212859..47216615-chr2:47301507..47304672,4	MCF-7	breast:
12	chr2:47214614..47216991-chr2:47391312..47393709,3	K562	blood:
13	chr2:47211854..47216258-chr2:47229137..47232912,5	K562	blood:
14	chr2:47212912..47216047-chr2:47549012..47553411,7	MCF-7	breast:
15	chr2:47210303..47217706-chr2:47402135..47406405,13	MCF-7	breast:
16	chr2:47212292..47217234-chr2:47401238..47405508,6	K562	blood:
17	chr2:47213839..47216114-chr2:47390613..47392812,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000180398	Chromatin interaction
ENSG00000143933	Chromatin interaction
ENSG00000068724	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs13400490	0.82[JPT][hapmap]
rs13403803	0.82[JPT][hapmap];0.81[YRI][hapmap]
rs13411760	1.00[ASW][hapmap];1.00[CEU][hapmap];0.92[GIH][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];0.94[TSI][hapmap];0.96[YRI][hapmap]
rs13413587	0.82[JPT][hapmap]
rs13428696	0.82[JPT][hapmap];0.91[YRI][hapmap];0.89[AFR][1000 genomes]
rs13432506	0.82[JPT][hapmap]
rs17035931	0.81[CHD][hapmap]
rs17036028	1.00[ASW][hapmap];0.92[GIH][hapmap];0.82[JPT][hapmap];0.94[LWK][hapmap];0.94[TSI][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs2304286	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs4542901	0.83[ASW][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];0.92[GIH][hapmap];0.82[JPT][hapmap];0.88[LWK][hapmap]
rs57154346	0.91[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs58580247	0.87[ASN][1000 genomes]
rs6544945	1.00[CHB][hapmap];0.92[YRI][hapmap];0.96[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs6544946	0.85[AFR][1000 genomes]
rs6544948	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72806566	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7564680	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7594681	0.82[JPT][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];0.86[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817517	chr2:46819371-47715140	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	152 gene(s)	inside rSNPs	diseases
2	nsv457352	chr2:47004788-47325973	Active TSS Enhancers Genic enhancers Strong transcription Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
3	nsv581749	chr2:47004788-47325973	Flanking Active TSS Enhancers Genic enhancers Strong transcription Weak transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
4	nsv1004828	chr2:47056849-47814482	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
5	nsv524970	chr2:47162739-47302095	Enhancers Genic enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
6	nsv1000377	chr2:47189386-47344029	Weak transcription Flanking Active TSS Genic enhancers Enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
7	nsv581750	chr2:47207665-47229953	Weak transcription Genic enhancers Strong transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
8	nsv525197	chr2:47210747-47297973	Strong transcription Enhancers ZNF genes & repeats Weak transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:47196600-47227800	Strong transcription	Dnd41	blood
2	chr2:47200800-47216400	Genic enhancers	Fetal Thymus	thymus
3	chr2:47208000-47217400	Enhancers	Stomach Mucosa	stomach
4	chr2:47208600-47216000	Enhancers	Brain Substantia Nigra	brain
5	chr2:47208600-47219200	Enhancers	Brain Inferior Temporal Lobe	brain
6	chr2:47209400-47217200	Genic enhancers	NHLF	lung
7	chr2:47209600-47217400	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr2:47209600-47218200	Enhancers	Skeletal Muscle Female	skeletal muscle
9	chr2:47210200-47215800	Enhancers	Sigmoid Colon	Sigmoid Colon
10	chr2:47210600-47216600	Enhancers	ES-I3 Cell Line	embryonic stem cell
11	chr2:47210800-47215800	Enhancers	Spleen	Spleen
12	chr2:47211000-47215800	Enhancers	Brain Hippocampus Middle	brain
13	chr2:47211400-47217600	Enhancers	Right Atrium	heart
14	chr2:47211800-47215800	Enhancers	HSMMtube	muscle
15	chr2:47211800-47218000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
16	chr2:47211800-47218000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr2:47212000-47217200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr2:47212000-47217200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr2:47212000-47217600	Enhancers	Rectal Smooth Muscle	rectum
20	chr2:47212200-47218200	Enhancers	Breast Myoepithelial Primary Cells	Breast
21	chr2:47212400-47217000	Enhancers	Fetal Heart	heart
22	chr2:47212400-47217600	Enhancers	Fetal Muscle Trunk	muscle
23	chr2:47212600-47217400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr2:47212800-47217400	Enhancers	Cortex derived primary cultured neurospheres	brain
25	chr2:47213000-47216400	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
26	chr2:47213000-47217000	Enhancers	Right Ventricle	heart
27	chr2:47213000-47217400	Enhancers	Left Ventricle	heart
28	chr2:47213000-47218000	Enhancers	Brain Cingulate Gyrus	brain
29	chr2:47213000-47221600	Weak transcription	HUES64 Cell Line	embryonic stem cell
30	chr2:47213400-47216200	Enhancers	Fetal Stomach	stomach
31	chr2:47213400-47216600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr2:47213400-47217400	Enhancers	Pancreas	Pancrea
33	chr2:47213400-47217600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
34	chr2:47213400-47218000	Enhancers	Brain Angular Gyrus	brain
35	chr2:47213600-47216400	Enhancers	Liver	Liver
36	chr2:47213600-47217200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr2:47213600-47256400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
38	chr2:47213800-47216400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr2:47213800-47216800	Genic enhancers	Fetal Intestine Small	intestine
40	chr2:47213800-47217400	Enhancers	Fetal Brain Male	brain
41	chr2:47213800-47218200	Enhancers	Ovary	ovary
42	chr2:47214000-47215800	Enhancers	Gastric	stomach
43	chr2:47214000-47216000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
44	chr2:47214000-47216000	Genic enhancers	Fetal Intestine Large	intestine
45	chr2:47214000-47262000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
46	chr2:47214200-47216400	Enhancers	HSMM	muscle
47	chr2:47214200-47217200	Enhancers	Fetal Muscle Leg	muscle
48	chr2:47214200-47221000	Weak transcription	HUES48 Cell Line	embryonic stem cell
49	chr2:47214200-47221200	Weak transcription	Small Intestine	intestine
50	chr2:47214200-47221600	Weak transcription	H1 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links