Variant report

Variant	rs4972817
Chromosome Location	chr2:173246768-173246769
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:173241953..173243647-chr2:173245498..173247532,2	MCF-7	breast:
2	chr2:173238964..173242268-chr2:173243569..173246875,3	K562	blood:

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10207752	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10930552	0.94[EUR][1000 genomes]
rs10930553	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11677757	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11687888	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12477699	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12997279	0.81[AMR][1000 genomes]
rs13020542	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13027402	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs13028213	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4972814	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4972815	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4972818	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4972819	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533927	chr2:173161637-173796894	Active TSS Enhancers Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:173239200-173260200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr2:173243800-173246800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr2:173243800-173247400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
4	chr2:173244400-173247000	Enhancers	Primary monocytes fromperipheralblood	blood
5	chr2:173244400-173247200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr2:173244600-173254400	Weak transcription	Lung	lung
7	chr2:173244800-173247600	Enhancers	Cortex derived primary cultured neurospheres	brain
8	chr2:173245000-173247600	Enhancers	H9 Cell Line	embryonic stem cell
9	chr2:173245400-173247200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr2:173245400-173248000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr2:173245600-173247600	Enhancers	H1 Cell Line	embryonic stem cell
12	chr2:173245800-173246800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr2:173245800-173247400	Weak transcription	Fetal Muscle Trunk	muscle
14	chr2:173246200-173249400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr2:173246200-173254400	Weak transcription	Fetal Intestine Small	intestine
16	chr2:173246200-173258400	Weak transcription	Fetal Muscle Leg	muscle
17	chr2:173246200-173260200	Weak transcription	Right Atrium	heart
18	chr2:173246400-173246800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr2:173246400-173247400	Enhancers	ES-I3 Cell Line	embryonic stem cell
20	chr2:173246400-173247800	Weak transcription	Primary hematopoietic stem cells	blood
21	chr2:173246400-173248400	Weak transcription	Stomach Mucosa	stomach
22	chr2:173246400-173249600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
23	chr2:173246400-173249600	Weak transcription	Fetal Thymus	thymus
24	chr2:173246400-173249600	Weak transcription	Thymus	Thymus
25	chr2:173246400-173251200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr2:173246400-173251800	Weak transcription	Fetal Lung	lung
27	chr2:173246600-173247200	Enhancers	iPS-20b Cell Line	embryonic stem cell
28	chr2:173246600-173247600	Enhancers	HUES6 Cell Line	embryonic stem cell
29	chr2:173246600-173247800	Enhancers	iPS-18 Cell Line	embryonic stem cell
30	chr2:173246600-173248400	Weak transcription	Monocytes-CD14+_RO01746	blood
31	chr2:173246600-173251600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr2:173246600-173251800	Weak transcription	Fetal Heart	heart
33	chr2:173246600-173252200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links