Variant report

Variant	rs200914
Chromosome Location	chr10:38117691-38117692
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:38102329..38104964-chr10:38116969..38118969,2	MCF-7	breast:

Extended variants
information (count: 33 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10508861	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11011371	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1208578	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1208619	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1208621	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12243792	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12265979	0.81[EUR][1000 genomes]
rs12412402	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12413854	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs16937571	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1735625	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17608725	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1779073	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs200907	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs200909	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs200913	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs200941	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2474553	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2489166	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2738221	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2753883	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3739992	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs55738335	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs55742761	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs59486180	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7068885	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs766362	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7895468	0.81[EUR][1000 genomes]
rs9418311	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895030	chr10:37715737-38674609	Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv1045684	chr10:37765361-38426204	Weak transcription ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
3	nsv540564	chr10:37765361-38426204	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	nsv1040704	chr10:37940024-38451917	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs200914	ZNF37A	Cis_1M	lymphoblastoid	RTeQTL
rs200914	HSD17B7///HSD17B7P2///LOC730412	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:38103800-38118000	Weak transcription	Brain Cingulate Gyrus	brain
2	chr10:38111200-38118400	Weak transcription	HepG2	liver
3	chr10:38113200-38118000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr10:38113600-38117800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr10:38113600-38118000	Weak transcription	Brain Substantia Nigra	brain
6	chr10:38114000-38118800	Weak transcription	HSMMtube	muscle
7	chr10:38114000-38128800	ZNF genes & repeats	Liver	Liver
8	chr10:38114200-38119000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr10:38114400-38123600	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
10	chr10:38114400-38125600	ZNF genes & repeats	Primary T cells from cord blood	blood
11	chr10:38114400-38125800	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr10:38114400-38130000	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
13	chr10:38114600-38120600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr10:38114800-38117800	Weak transcription	Placenta	Placenta
15	chr10:38114800-38120600	Weak transcription	Fetal Stomach	stomach
16	chr10:38115200-38118400	Weak transcription	Stomach Mucosa	stomach
17	chr10:38115400-38118000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr10:38115600-38129000	ZNF genes & repeats	A549	lung
19	chr10:38115600-38138200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr10:38115800-38118600	Strong transcription	Skeletal Muscle Male	skeletal muscle
21	chr10:38115800-38119000	Strong transcription	Rectal Mucosa Donor 29	rectum
22	chr10:38115800-38122800	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
23	chr10:38115800-38123000	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
24	chr10:38115800-38123000	ZNF genes & repeats	Aorta	Aorta
25	chr10:38115800-38123600	ZNF genes & repeats	Primary T helper cells fromperipheralblood	blood
26	chr10:38115800-38132200	ZNF genes & repeats	Fetal Brain Female	brain
27	chr10:38116000-38118000	Strong transcription	Brain Germinal Matrix	brain
28	chr10:38116000-38118400	Strong transcription	Skeletal Muscle Female	skeletal muscle
29	chr10:38116000-38120000	Strong transcription	Left Ventricle	heart
30	chr10:38116000-38122800	ZNF genes & repeats	Adipose Nuclei	Adipose
31	chr10:38116000-38123000	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr10:38116000-38128800	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr10:38116200-38117800	Weak transcription	Sigmoid Colon	Sigmoid Colon
34	chr10:38116200-38118000	Strong transcription	Fetal Intestine Large	intestine
35	chr10:38116200-38118000	Strong transcription	Rectal Smooth Muscle	rectum
36	chr10:38116200-38118000	Weak transcription	HSMM	muscle
37	chr10:38116200-38119000	Strong transcription	Fetal Kidney	kidney
38	chr10:38116200-38123600	ZNF genes & repeats	Rectal Mucosa Donor 31	rectum
39	chr10:38116200-38127600	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
40	chr10:38116200-38137800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr10:38116400-38118000	Weak transcription	Right Ventricle	heart
42	chr10:38116400-38119800	Strong transcription	Brain Angular Gyrus	brain
43	chr10:38116400-38120000	Strong transcription	Brain Anterior Caudate	brain
44	chr10:38116400-38120600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
45	chr10:38116400-38128400	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
46	chr10:38116600-38118000	Strong transcription	Stomach Smooth Muscle	stomach
47	chr10:38116600-38118600	Weak transcription	Fetal Thymus	thymus
48	chr10:38116600-38119400	Strong transcription	Cortex derived primary cultured neurospheres	brain
49	chr10:38116600-38119800	Strong transcription	Brain Inferior Temporal Lobe	brain
50	chr10:38116600-38121600	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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