Variant report

Variant	rs7038156
Chromosome Location	chr9:96959415-96959416
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:96935573..96938519-chr9:96957688..96959458,2	K562	blood:
2	chr9:96933308..96934893-chr9:96957370..96959656,2	MCF-7	breast:
3	chr9:96773917..96776772-chr9:96957633..96960595,2	K562	blood:

Variant related genes	Relation type
ENSG00000199165	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10115278	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10116369	0.83[MKK][hapmap]
rs10117272	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10117305	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10122644	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10512232	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10821307	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10821312	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.95[TSI][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10821315	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10993093	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12342389	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12345620	0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12377837	1.00[CHB][hapmap]
rs12378444	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2080658	1.00[CHB][hapmap]
rs4744321	0.93[ASW][hapmap];0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];0.86[MEX][hapmap];0.98[MKK][hapmap];0.86[TSI][hapmap];0.86[YRI][hapmap];0.88[AFR][1000 genomes];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4744324	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4744326	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6479530	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7025626	1.00[CHB][hapmap]
rs7865658	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8115	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv482457	chr9:96813852-96996170	Strong transcription Flanking Active TSS Weak transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	217 gene(s)	inside rSNPs	diseases
2	nsv831655	chr9:96834042-97042009	Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	218 gene(s)	inside rSNPs	diseases
3	esv3394266	chr9:96935210-97045514	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	195 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7038156	SLC35D2	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96931400-96965600	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr9:96939800-96960800	Weak transcription	NHDF-Ad	bronchial
3	chr9:96942400-96964000	Weak transcription	Rectal Smooth Muscle	rectum
4	chr9:96946200-96962800	Weak transcription	Gastric	stomach
5	chr9:96946200-96965000	Weak transcription	NHLF	lung
6	chr9:96946800-96965400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr9:96947000-96959800	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr9:96947000-96966200	Weak transcription	Fetal Kidney	kidney
9	chr9:96949400-96960200	Weak transcription	Placenta	Placenta
10	chr9:96954200-96959800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr9:96955000-96964600	Weak transcription	Ovary	ovary
12	chr9:96955400-96962200	Weak transcription	Brain Cingulate Gyrus	brain
13	chr9:96955600-96959600	Weak transcription	HSMMtube	muscle
14	chr9:96955800-96962800	Weak transcription	Stomach Smooth Muscle	stomach
15	chr9:96956800-96963000	Strong transcription	HSMM	muscle
16	chr9:96956800-96963400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr9:96957000-96963000	Strong transcription	Muscle Satellite Cultured Cells	--
18	chr9:96957400-96961200	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
19	chr9:96957800-96961600	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr9:96958000-96960200	Weak transcription	Skeletal Muscle Female	skeletal muscle
21	chr9:96958400-96960400	Strong transcription	Osteobl	bone
22	chr9:96958400-96962600	Weak transcription	Primary T cells from cord blood	blood
23	chr9:96958400-96963000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr9:96958400-96963800	Weak transcription	Primary B cells from cord blood	blood
25	chr9:96958600-96959600	Weak transcription	Adipose Nuclei	Adipose
26	chr9:96958600-96959600	Weak transcription	Fetal Muscle Trunk	muscle
27	chr9:96958600-96960200	Weak transcription	Brain Angular Gyrus	brain
28	chr9:96958600-96963400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr9:96958800-96960800	Weak transcription	Right Ventricle	heart
30	chr9:96959000-96961400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr9:96959200-96959600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr9:96959200-96960200	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr9:96959200-96960400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
34	chr9:96959200-96961200	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr9:96959200-96961200	Strong transcription	NHEK	skin
36	chr9:96959200-96961400	ZNF genes & repeats	Fetal Muscle Leg	muscle
37	chr9:96959400-96959600	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
38	chr9:96959400-96959600	Genic enhancers	Left Ventricle	heart
39	chr9:96959400-96959800	ZNF genes & repeats	Lung	lung
40	chr9:96959400-96959800	Enhancers	Psoas Muscle	Psoas
41	chr9:96959400-96959800	ZNF genes & repeats	Spleen	Spleen
42	chr9:96959400-96959800	Enhancers	K562	blood
43	chr9:96959400-96960600	Strong transcription	Aorta	Aorta
44	chr9:96959400-96960800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr9:96959400-96961000	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
46	chr9:96959400-96961000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
47	chr9:96959400-96961200	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin01	Skin
48	chr9:96959400-96961200	ZNF genes & repeats	Fetal Stomach	stomach
49	chr9:96959400-96961400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr9:96959400-96961800	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links