Variant report

Variant	rs9469624
Chromosome Location	chr6:33874951-33874952
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr6:33874840-33874990	WERI-Rb-1	eye:	n/a	chr6:33874966-33874975 chr6:33874963-33874976
2	CTCF	chr6:33874917-33874996	MCF-7	breast:	n/a	chr6:33874966-33874975 chr6:33874963-33874976
3	CTCF	chr6:33874860-33875010	WERI-Rb-1	eye:	n/a	chr6:33874966-33874975 chr6:33874963-33874976

No.	Distal block	Cell Line	Cell type
1	chr6:33874668..33878393-chr6:33879974..33881906,3	K562	blood:
2	chr6:33871240..33875960-chr6:33876004..33878253,4	K562	blood:
3	chr6:33854576..33856833-chr6:33873252..33875998,2	K562	blood:
4	chr6:33678377..33680727-chr6:33873373..33875041,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ITPR3-1	chr6:33874641-33875578	XLOC_005263

Variant related genes	Relation type
ENSG00000233183	TF binding region
ENSG00000137288	Chromatin interaction

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

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

rs_ID	r²[population]
rs12191571	0.82[ASN][1000 genomes]
rs12199670	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12204774	0.82[ASN][1000 genomes]
rs12216099	0.82[ASN][1000 genomes]
rs12216193	1.00[JPT][hapmap];0.91[YRI][hapmap];0.82[ASN][1000 genomes]
rs12216247	0.82[ASN][1000 genomes]
rs16869677	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56334904	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56673015	0.82[ASN][1000 genomes]
rs59611552	0.82[ASN][1000 genomes]
rs73744913	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73744932	0.82[ASN][1000 genomes]
rs9461928	0.82[ASN][1000 genomes]
rs9461929	0.82[ASN][1000 genomes]
rs9469625	1.00[JPT][hapmap];0.83[YRI][hapmap];0.82[ASN][1000 genomes]
rs9469626	0.82[ASN][1000 genomes]
rs9469627	1.00[JPT][hapmap];0.92[YRI][hapmap];0.83[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs9469628	0.82[ASN][1000 genomes]
rs9469631	1.00[JPT][hapmap];0.82[YRI][hapmap];0.82[ASN][1000 genomes]
rs9469632	0.82[ASN][1000 genomes]
rs9469633	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs9469634	0.82[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916210	chr6:33804111-34144062	Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:33865600-33883000	Weak transcription	Esophagus	oesophagus
2	chr6:33868200-33877800	Enhancers	Primary hematopoietic stem cells	blood
3	chr6:33870800-33875200	Enhancers	Primary B cells from peripheral blood	blood
4	chr6:33870800-33876600	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
5	chr6:33871400-33875400	Enhancers	Thymus	Thymus
6	chr6:33871600-33876400	Enhancers	Fetal Intestine Small	intestine
7	chr6:33871800-33875600	Enhancers	Breast Myoepithelial Primary Cells	Breast
8	chr6:33872800-33878000	Enhancers	Primary hematopoietic stem cells short term culture	blood
9	chr6:33872800-33878800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr6:33873000-33876400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
11	chr6:33873000-33876400	Enhancers	Duodenum Mucosa	Duodenum
12	chr6:33873000-33884000	Enhancers	Fetal Thymus	thymus
13	chr6:33873200-33875200	Weak transcription	Primary neutrophils fromperipheralblood	blood
14	chr6:33873200-33876000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
15	chr6:33873200-33876600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
16	chr6:33873200-33877400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
17	chr6:33873200-33878200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr6:33873400-33875400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
19	chr6:33873400-33875600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
20	chr6:33873400-33876800	Enhancers	Primary T helper cells fromperipheralblood	blood
21	chr6:33873400-33878000	Enhancers	Primary T helper cells PMA-I stimulated	--
22	chr6:33873400-33878000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
23	chr6:33873400-33878400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
24	chr6:33873400-33883800	Enhancers	Primary T cells fromperipheralblood	blood
25	chr6:33873600-33876400	Enhancers	Primary T killer memory cells from peripheral blood	blood
26	chr6:33873800-33877000	Enhancers	Primary T cells from cord blood	blood
27	chr6:33873800-33879000	Enhancers	Primary T helper naive cells from peripheral blood	blood
28	chr6:33873800-33882000	Weak transcription	Spleen	Spleen
29	chr6:33874000-33881800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr6:33874200-33875000	Bivalent Enhancer	Fetal Muscle Trunk	muscle
31	chr6:33874200-33876800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr6:33874200-33882200	Weak transcription	Rectal Mucosa Donor 29	rectum
33	chr6:33874200-33889200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
34	chr6:33874400-33875800	Weak transcription	K562	blood
35	chr6:33874400-33877800	Enhancers	Liver	Liver
36	chr6:33874600-33875000	Weak transcription	Primary B cells from cord blood	blood
37	chr6:33874600-33875000	Weak transcription	GM12878-XiMat	blood
38	chr6:33874600-33876400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
39	chr6:33874600-33878000	Enhancers	Fetal Intestine Large	intestine
40	chr6:33874800-33875600	Enhancers	Pancreas	Pancrea
41	chr6:33874800-33876200	Enhancers	Fetal Kidney	kidney

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