Variant report

Variant	rs9373832
Chromosome Location	chr6:106560545-106560546
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:106558728..106560776-chr6:106566123..106570070,3	K562	blood:
2	chr6:106560146..106562675-chr6:106563041..106565107,2	K562	blood:
3	chr6:106557782..106560621-chr6:106566245..106567959,2	MCF-7	breast:

Extended variants
information (count: 20 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs1010273	0.89[JPT][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12175062	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17586975	0.87[AFR][1000 genomes]
rs1934593	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs1985899	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4946722	0.90[CEU][hapmap];0.84[EUR][1000 genomes]
rs4946724	0.89[CEU][hapmap];0.81[EUR][1000 genomes]
rs4946725	0.89[CEU][hapmap];0.89[JPT][hapmap];0.89[EUR][1000 genomes]
rs72943425	0.87[AFR][1000 genomes]
rs72943438	0.87[AFR][1000 genomes]
rs9386507	0.83[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932155	chr6:106281728-107030467	Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv1025231	chr6:106451012-106634389	Enhancers Active TSS Strong transcription Flanking Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv830755	chr6:106461705-106624202	Weak transcription Active TSS Bivalent Enhancer Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
4	nsv1025900	chr6:106529777-106898421	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
5	nsv1018270	chr6:106531658-106908606	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
6	nsv538399	chr6:106531658-106908606	Flanking Active TSS Active TSS Enhancers Strong transcription Genic enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
7	esv1832544	chr6:106539914-106642993	Enhancers Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
8	nsv1035110	chr6:106557281-106802212	Enhancers Strong transcription ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
9	nsv538400	chr6:106557281-106802212	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9373832	PRDM1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:74 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:106546800-106567000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr6:106547200-106562600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:106548400-106561800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
4	chr6:106551600-106563800	Weak transcription	Brain Cingulate Gyrus	brain
5	chr6:106551800-106563000	Weak transcription	HSMMtube	muscle
6	chr6:106551800-106564000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr6:106551800-106564000	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr6:106553600-106584000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr6:106554600-106566800	Weak transcription	Hela-S3	cervix
10	chr6:106554800-106564000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr6:106555200-106561200	Weak transcription	Adipose Nuclei	Adipose
12	chr6:106555200-106562800	Weak transcription	Spleen	Spleen
13	chr6:106555200-106563800	Weak transcription	Esophagus	oesophagus
14	chr6:106555200-106564200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr6:106555200-106564400	Weak transcription	Ovary	ovary
16	chr6:106555400-106561400	Weak transcription	Right Ventricle	heart
17	chr6:106555400-106561600	Weak transcription	NHLF	lung
18	chr6:106555400-106563000	Weak transcription	Muscle Satellite Cultured Cells	--
19	chr6:106555400-106563200	Weak transcription	HMEC	breast
20	chr6:106555400-106563400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr6:106555400-106565000	Weak transcription	Primary neutrophils fromperipheralblood	blood
22	chr6:106555600-106561400	Weak transcription	NHEK	skin
23	chr6:106556000-106561200	Weak transcription	Colonic Mucosa	Colon
24	chr6:106556000-106564000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr6:106556200-106562400	Weak transcription	Placenta	Placenta
26	chr6:106556400-106563800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr6:106556400-106563800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr6:106556400-106567400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr6:106556800-106562800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
30	chr6:106557200-106561800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr6:106557200-106567200	Weak transcription	Fetal Intestine Large	intestine
32	chr6:106557600-106567400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr6:106557800-106561600	Enhancers	Rectal Mucosa Donor 31	rectum
34	chr6:106557800-106562400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
35	chr6:106557800-106563400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr6:106558200-106561200	Weak transcription	Right Atrium	heart
37	chr6:106558600-106561000	Enhancers	Brain Germinal Matrix	brain
38	chr6:106558800-106563800	Weak transcription	Lung	lung
39	chr6:106559000-106560600	Enhancers	Colon Smooth Muscle	Colon
40	chr6:106559200-106562000	Enhancers	Primary hematopoietic stem cells	blood
41	chr6:106559200-106567200	Enhancers	Primary T helper cells fromperipheralblood	blood
42	chr6:106559200-106574200	Weak transcription	Small Intestine	intestine
43	chr6:106559400-106561600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr6:106559400-106561800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
45	chr6:106559600-106562400	Enhancers	Primary T cells fromperipheralblood	blood
46	chr6:106559600-106562600	Weak transcription	Rectal Smooth Muscle	rectum
47	chr6:106559600-106567200	Enhancers	Primary T killer memory cells from peripheral blood	blood
48	chr6:106559800-106561800	Enhancers	Primary monocytes fromperipheralblood	blood
49	chr6:106559800-106561800	Enhancers	Primary hematopoietic stem cells short term culture	blood
50	chr6:106559800-106561800	Enhancers	Osteobl	bone

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