Variant report

Variant	rs4743902
Chromosome Location	chr9:95965696-95965697
allele	C/T
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:13)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:13 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr17:59475172..59477375-chr9:95965489..95967271,2	MCF-7	breast:
2	chr9:95964446..95966311-chr9:95967245..95969006,2	K562	blood:
3	chr9:95964283..95966409-chr9:96054070..96056053,2	MCF-7	breast:
4	chr9:95963731..95965841-chr9:96218662..96220646,2	MCF-7	breast:
5	chr9:95964307..95966000-chr9:95985456..95987978,3	MCF-7	breast:
6	chr9:95894082..95896829-chr9:95963549..95967128,4	MCF-7	breast:
7	chr9:95965438..95972862-chr9:95973191..95979158,8	MCF-7	breast:
8	chr9:95894379..95898101-chr9:95963413..95967627,3	MCF-7	breast:
9	chr9:95963232..95968490-chr9:95968804..95973983,9	MCF-7	breast:
10	chr9:95964428..95966421-chr9:96073995..96075775,2	MCF-7	breast:
11	chr9:95964711..95966823-chr9:95982428..95983941,2	MCF-7	breast:
12	chr9:95963970..95967338-chr9:96031466..96034520,4	MCF-7	breast:
13	chr9:95963712..95965876-chr9:96038705..96040305,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000267280	Chromatin interaction
ENSG00000165238	Chromatin interaction
ENSG00000121068	Chromatin interaction
ENSG00000131669	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10761197	1.00[AFR][1000 genomes]
rs10821081	0.81[EUR][1000 genomes]
rs10992667	0.82[JPT][hapmap];1.00[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs1105079	0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1539669	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2398818	1.00[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs2398821	1.00[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs4743899	1.00[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs4743903	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4744182	1.00[AFR][1000 genomes]
rs6479461	1.00[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs6479464	0.80[CEU][hapmap];1.00[YRI][hapmap];0.81[EUR][1000 genomes]
rs7039424	1.00[AFR][1000 genomes]
rs7041800	0.86[JPT][hapmap];1.00[YRI][hapmap]
rs7858813	0.80[CEU][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs7866375	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv526296	chr9:95708192-96030392	Enhancers Bivalent/Poised TSS Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	nsv893576	chr9:95789960-96158277	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv893580	chr9:95855100-96099377	Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Active TSS Weak transcription Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
4	nsv824983	chr9:95902154-95978408	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
5	nsv430082	chr9:95905745-96095045	Genic enhancers Enhancers Active TSS Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
6	nsv614880	chr9:95930572-95978265	Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases
7	nsv893582	chr9:95963114-96116937	Bivalent Enhancer Bivalent/Poised TSS Weak transcription Enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:95950800-95967400	Enhancers	Fetal Heart	heart
2	chr9:95955800-95985600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr9:95957000-95973400	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr9:95958200-95966200	Enhancers	Placenta	Placenta
5	chr9:95958200-95972800	Enhancers	Left Ventricle	heart
6	chr9:95958200-95975600	Enhancers	Pancreas	Pancrea
7	chr9:95959000-95967200	Weak transcription	Small Intestine	intestine
8	chr9:95959200-95970200	Weak transcription	Lung	lung
9	chr9:95960400-95971400	Enhancers	Breast Myoepithelial Primary Cells	Breast
10	chr9:95960600-95975800	Weak transcription	HUES6 Cell Line	embryonic stem cell
11	chr9:95962200-95970600	Enhancers	Fetal Brain Male	brain
12	chr9:95962200-95973400	Enhancers	Right Ventricle	heart
13	chr9:95962400-95969600	Enhancers	Brain Anterior Caudate	brain
14	chr9:95962600-95970200	Enhancers	Brain Angular Gyrus	brain
15	chr9:95962800-95967400	Enhancers	Colon Smooth Muscle	Colon
16	chr9:95962800-95972600	Enhancers	Fetal Muscle Leg	muscle
17	chr9:95962800-95975600	Enhancers	Fetal Intestine Large	intestine
18	chr9:95963200-95966200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr9:95963200-95970800	Enhancers	Fetal Thymus	thymus
20	chr9:95963200-95971200	Enhancers	Cortex derived primary cultured neurospheres	brain
21	chr9:95963400-95965800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr9:95963400-95966400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr9:95963400-95967600	Enhancers	Fetal Intestine Small	intestine
24	chr9:95963400-95968400	Flanking Active TSS	HepG2	liver
25	chr9:95963400-95972800	Enhancers	Psoas Muscle	Psoas
26	chr9:95963600-95966400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr9:95963600-95967600	Enhancers	Fetal Brain Female	brain
28	chr9:95963800-95972400	Enhancers	Right Atrium	heart
29	chr9:95964000-95971000	Enhancers	Brain Hippocampus Middle	brain
30	chr9:95964200-95966800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr9:95964200-95968000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
32	chr9:95964200-95970200	Enhancers	Brain Inferior Temporal Lobe	brain
33	chr9:95964400-95966000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
34	chr9:95964400-95966000	Enhancers	Stomach Mucosa	stomach
35	chr9:95964400-95966800	Enhancers	Fetal Muscle Trunk	muscle
36	chr9:95964400-95967600	Weak transcription	Placenta Amnion	Placenta Amnion
37	chr9:95964600-95965800	Weak transcription	Brain Cingulate Gyrus	brain
38	chr9:95964600-95966800	Weak transcription	Brain Germinal Matrix	brain
39	chr9:95964600-95966800	Weak transcription	Spleen	Spleen
40	chr9:95964600-95967000	Enhancers	Stomach Smooth Muscle	stomach
41	chr9:95964600-95969400	Weak transcription	Fetal Kidney	kidney
42	chr9:95964600-95970200	Enhancers	Duodenum Mucosa	Duodenum
43	chr9:95964800-95966000	Enhancers	Colonic Mucosa	Colon
44	chr9:95964800-95966200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
45	chr9:95964800-95966600	Weak transcription	Brain Substantia Nigra	brain
46	chr9:95964800-95967200	Weak transcription	Fetal Lung	lung
47	chr9:95964800-95967200	Enhancers	Skeletal Muscle Female	skeletal muscle
48	chr9:95964800-95968400	Weak transcription	Esophagus	oesophagus
49	chr9:95965000-95965800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
50	chr9:95965000-95969600	Enhancers	Duodenum Smooth Muscle	Duodenum

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