Variant report

Variant	rs9894364
Chromosome Location	chr17:38313661-38313662
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr17:38313565..38316096-chr17:38332141..38334380,2	MCF-7	breast:
2	chr17:38312398..38314132-chr17:38452808..38455315,2	K562	blood:
3	chr17:38294955..38299913-chr17:38310611..38315014,6	K562	blood:
4	chr17:38293161..38298058-chr17:38311065..38315666,6	K562	blood:
5	chr17:38296692..38298800-chr17:38313037..38316116,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000108352	Chromatin interaction
ENSG00000108349	Chromatin interaction

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10512482	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1104761	0.92[EUR][1000 genomes]
rs11540720	1.00[EUR][1000 genomes]
rs12103533	0.90[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs15685	0.92[EUR][1000 genomes]
rs16965660	1.00[EUR][1000 genomes]
rs16965669	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16965734	1.00[EUR][1000 genomes]
rs16965736	1.00[EUR][1000 genomes]
rs16965748	1.00[EUR][1000 genomes]
rs16965774	1.00[EUR][1000 genomes]
rs16965778	1.00[EUR][1000 genomes]
rs17616543	0.92[EUR][1000 genomes]
rs17616672	0.92[EUR][1000 genomes]
rs17616879	0.92[EUR][1000 genomes]
rs17617263	0.92[EUR][1000 genomes]
rs17678817	0.92[EUR][1000 genomes]
rs17678959	0.92[EUR][1000 genomes]
rs17678990	0.92[EUR][1000 genomes]
rs17679086	0.92[EUR][1000 genomes]
rs17679361	0.92[EUR][1000 genomes]
rs17680217	0.92[EUR][1000 genomes]
rs17680410	0.92[EUR][1000 genomes]
rs17680507	0.92[EUR][1000 genomes]
rs17680624	0.92[EUR][1000 genomes]
rs2012667	0.92[EUR][1000 genomes]
rs2229773	0.92[EUR][1000 genomes]
rs28362320	1.00[EUR][1000 genomes]
rs28362321	0.92[EUR][1000 genomes]
rs28526298	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs33998939	0.92[EUR][1000 genomes]
rs34270904	1.00[EUR][1000 genomes]
rs34300454	1.00[EUR][1000 genomes]
rs35783632	0.92[EUR][1000 genomes]
rs35898909	0.92[EUR][1000 genomes]
rs41283417	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41283423	0.92[EUR][1000 genomes]
rs4134993	0.92[EUR][1000 genomes]
rs4134998	0.92[EUR][1000 genomes]
rs4135005	0.92[EUR][1000 genomes]
rs4135007	0.92[EUR][1000 genomes]
rs4135012	0.92[EUR][1000 genomes]
rs4135019	0.92[EUR][1000 genomes]
rs4135021	0.92[EUR][1000 genomes]
rs4135027	0.92[EUR][1000 genomes]
rs4135030	0.92[EUR][1000 genomes]
rs45612441	0.92[EUR][1000 genomes]
rs8067519	0.88[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8071687	0.88[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8077482	1.00[EUR][1000 genomes]
rs9889905	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9891944	0.92[EUR][1000 genomes]
rs9894807	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9898500	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9899425	1.00[EUR][1000 genomes]
rs9900154	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9903293	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9906274	0.92[EUR][1000 genomes]
rs9909777	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9909811	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9910373	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9915775	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	nsv833444	chr17:38242823-38437280	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	62 gene(s)	inside rSNPs	diseases
2	nsv525796	chr17:38306365-38405037	Active TSS Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA miRNA target site	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:38297600-38318200	Weak transcription	Aorta	Aorta
2	chr17:38297600-38318200	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr17:38297600-38325200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr17:38297800-38318400	Weak transcription	Stomach Mucosa	stomach
5	chr17:38297800-38333000	Strong transcription	Fetal Muscle Trunk	muscle
6	chr17:38297800-38336600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr17:38298000-38324200	Strong transcription	HUES48 Cell Line	embryonic stem cell
8	chr17:38298000-38330400	Strong transcription	HUES64 Cell Line	embryonic stem cell
9	chr17:38298000-38330800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr17:38298200-38318000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr17:38298200-38318200	Weak transcription	Small Intestine	intestine
12	chr17:38298200-38324200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr17:38298200-38324400	Strong transcription	Fetal Stomach	stomach
14	chr17:38298200-38333000	Strong transcription	Fetal Thymus	thymus
15	chr17:38298400-38324200	Weak transcription	Fetal Heart	heart
16	chr17:38298600-38316400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr17:38298600-38319600	Weak transcription	Pancreatic Islets	Pancreatic Islet
18	chr17:38298600-38332200	Strong transcription	Fetal Intestine Small	intestine
19	chr17:38298800-38314000	Strong transcription	Fetal Muscle Leg	muscle
20	chr17:38299200-38319600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
21	chr17:38301600-38324200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr17:38301800-38324200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr17:38303000-38324400	Strong transcription	HUES6 Cell Line	embryonic stem cell
24	chr17:38304000-38314200	Weak transcription	Psoas Muscle	Psoas
25	chr17:38304000-38315200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
26	chr17:38305200-38318200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
27	chr17:38306600-38314200	Weak transcription	Right Atrium	heart
28	chr17:38306800-38314200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
29	chr17:38306800-38314800	Weak transcription	Brain Angular Gyrus	brain
30	chr17:38306800-38318200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
31	chr17:38306800-38318600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr17:38307000-38318000	Weak transcription	Fetal Kidney	kidney
33	chr17:38307000-38318200	Weak transcription	Fetal Brain Male	brain
34	chr17:38307800-38318000	Weak transcription	Colonic Mucosa	Colon
35	chr17:38308200-38333200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
36	chr17:38310200-38314000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
37	chr17:38310200-38314200	Weak transcription	Gastric	stomach
38	chr17:38310200-38314200	Weak transcription	Right Ventricle	heart
39	chr17:38310200-38314600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr17:38310200-38314600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
41	chr17:38310200-38318000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
42	chr17:38310200-38324200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr17:38310400-38314200	Weak transcription	Brain Inferior Temporal Lobe	brain
44	chr17:38310400-38314400	Weak transcription	NHDF-Ad	bronchial
45	chr17:38310400-38318000	Weak transcription	Brain Substantia Nigra	brain
46	chr17:38310800-38314200	Weak transcription	Esophagus	oesophagus
47	chr17:38310800-38315600	Weak transcription	Ovary	ovary
48	chr17:38310800-38317400	Weak transcription	H1 Cell Line	embryonic stem cell
49	chr17:38310800-38317800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
50	chr17:38310800-38318000	Weak transcription	NHEK	skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links