Variant report

Variant	rs7864169
Chromosome Location	chr9:116242306-116242307
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:116237410..116240244-chr9:116241826..116244772,3	MCF-7	breast:
2	chr9:116241552..116244395-chr9:116341689..116345225,3	MCF-7	breast:
3	chr9:116172568..116175164-chr9:116240650..116243848,4	MCF-7	breast:
4	chr9:116242234..116244423-chr9:116246310..116248311,2	MCF-7	breast:
5	chr9:116223200..116229905-chr9:116240839..116245410,9	MCF-7	breast:

Variant related genes	Relation type
ENSG00000157653	Chromatin interaction
ENSG00000138835	Chromatin interaction
ENSG00000148229	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs12346476	1.00[EUR][1000 genomes]
rs60969910	1.00[EUR][1000 genomes]
rs62619247	1.00[AMR][1000 genomes]
rs6478021	1.00[EUR][1000 genomes]
rs7023224	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7027261	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7032245	1.00[EUR][1000 genomes]
rs7032414	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7033489	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7038258	1.00[EUR][1000 genomes]
rs7042609	1.00[EUR][1000 genomes]
rs73538901	1.00[EUR][1000 genomes]
rs73544687	1.00[EUR][1000 genomes]
rs73544688	1.00[EUR][1000 genomes]
rs7851265	1.00[EUR][1000 genomes]
rs7853612	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7856713	1.00[EUR][1000 genomes]
rs7865642	1.00[EUR][1000 genomes]
rs7866866	1.00[EUR][1000 genomes]
rs7867017	1.00[EUR][1000 genomes]
rs7870008	1.00[EUR][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	nsv530949	chr9:115821128-116487796	Flanking Active TSS Enhancers Active TSS Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
2	nsv893747	chr9:116214058-116386438	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:116227400-116263800	Weak transcription	Colonic Mucosa	Colon
2	chr9:116228400-116245000	Weak transcription	Fetal Intestine Large	intestine
3	chr9:116231600-116249800	Weak transcription	Hela-S3	cervix
4	chr9:116231800-116243000	Weak transcription	A549	lung
5	chr9:116231800-116246600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
6	chr9:116234800-116243000	Enhancers	Fetal Heart	heart
7	chr9:116235000-116251200	Weak transcription	Primary hematopoietic stem cells	blood
8	chr9:116236200-116252400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr9:116237000-116246200	Weak transcription	Duodenum Smooth Muscle	Duodenum
10	chr9:116237600-116244800	Weak transcription	Rectal Smooth Muscle	rectum
11	chr9:116237800-116243000	Weak transcription	Fetal Stomach	stomach
12	chr9:116239200-116250200	Weak transcription	Psoas Muscle	Psoas
13	chr9:116239600-116245800	Weak transcription	Skeletal Muscle Female	skeletal muscle
14	chr9:116240000-116243000	Weak transcription	Right Ventricle	heart
15	chr9:116240200-116242800	Weak transcription	Pancreas	Pancrea
16	chr9:116240200-116245400	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr9:116240400-116254600	Weak transcription	H9 Cell Line	embryonic stem cell
18	chr9:116241200-116242400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
19	chr9:116241200-116244000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
20	chr9:116241200-116252800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr9:116241400-116242400	Enhancers	Brain Anterior Caudate	brain
22	chr9:116241400-116242400	Enhancers	Stomach Mucosa	stomach
23	chr9:116241400-116243200	Enhancers	Left Ventricle	heart
24	chr9:116241600-116243200	Enhancers	Stomach Smooth Muscle	stomach
25	chr9:116241600-116247800	Weak transcription	Rectal Mucosa Donor 29	rectum
26	chr9:116241800-116242600	Weak transcription	HepG2	liver
27	chr9:116241800-116242800	Weak transcription	Spleen	Spleen
28	chr9:116241800-116243000	Weak transcription	Lung	lung
29	chr9:116241800-116243200	Weak transcription	Rectal Mucosa Donor 31	rectum
30	chr9:116241800-116243600	Weak transcription	Brain Hippocampus Middle	brain
31	chr9:116241800-116243600	Weak transcription	Duodenum Mucosa	Duodenum
32	chr9:116241800-116245800	Weak transcription	Brain Inferior Temporal Lobe	brain
33	chr9:116241800-116246000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr9:116241800-116248800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
35	chr9:116241800-116252200	Strong transcription	Fetal Intestine Small	intestine
36	chr9:116242000-116242800	Weak transcription	Gastric	stomach
37	chr9:116242000-116244600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
38	chr9:116242000-116245600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
39	chr9:116242000-116245800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
40	chr9:116242000-116246000	Weak transcription	Cortex derived primary cultured neurospheres	brain
41	chr9:116242000-116246000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr9:116242000-116248000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
43	chr9:116242000-116254200	Weak transcription	Brain Germinal Matrix	brain
44	chr9:116242000-116254200	Weak transcription	Fetal Thymus	thymus
45	chr9:116242000-116255200	Weak transcription	H1 Cell Line	embryonic stem cell
46	chr9:116242000-116263600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr9:116242000-116266200	Weak transcription	Sigmoid Colon	Sigmoid Colon
48	chr9:116242200-116243600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
49	chr9:116242200-116243600	Weak transcription	Right Atrium	heart
50	chr9:116242200-116245600	Weak transcription	Aorta	Aorta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links