Variant report

Variant	rs9394179
Chromosome Location	chr6:33872257-33872258
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:33863721..33865623-chr6:33871350..33873193,3	K562	blood:
2	chr6:33871240..33875960-chr6:33876004..33878253,4	K562	blood:
3	chr6:33863052..33865813-chr6:33870777..33873506,3	MCF-7	breast:
4	chr6:33867717..33870484-chr6:33872080..33874838,5	MCF-7	breast:
5	chr6:33871826..33874776-chr6:33875956..33877869,2	MCF-7	breast:
6	chr6:33870279..33872339-chr6:33881420..33883614,2	K562	blood:

Variant related genes	Relation type
ENSG00000233183	Chromatin interaction
ENSG00000249346	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:1)

rs_ID	r²[population]
rs2499761	0.88[CEU][hapmap]

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

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9394179	HLA-DMB	cis	lymphoblastoid	seeQTL
rs9394179	HLA-DMA	cis	lymphoblastoid	seeQTL

Chromatin state (count:60 , 50 per page) page: 1 2

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	chr6:33869600-33873400	Flanking Active TSS	K562	blood
4	chr6:33870600-33872600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
5	chr6:33870800-33875200	Enhancers	Primary B cells from peripheral blood	blood
6	chr6:33870800-33876600	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
7	chr6:33871000-33872600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr6:33871200-33873200	Enhancers	Primary B cells from cord blood	blood
9	chr6:33871400-33872400	Enhancers	Rectal Mucosa Donor 31	rectum
10	chr6:33871400-33873600	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
11	chr6:33871400-33875400	Enhancers	Thymus	Thymus
12	chr6:33871600-33872800	Enhancers	Rectal Mucosa Donor 29	rectum
13	chr6:33871600-33873000	Flanking Active TSS	Fetal Thymus	thymus
14	chr6:33871600-33873200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr6:33871600-33873200	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
16	chr6:33871600-33873400	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
17	chr6:33871600-33873400	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
18	chr6:33871600-33873600	Enhancers	Fetal Intestine Large	intestine
19	chr6:33871600-33874000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr6:33871600-33874000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr6:33871600-33874600	Enhancers	GM12878-XiMat	blood
22	chr6:33871600-33876400	Enhancers	Fetal Intestine Small	intestine
23	chr6:33871800-33872400	Weak transcription	Adipose Nuclei	Adipose
24	chr6:33871800-33872400	Enhancers	Pancreas	Pancrea
25	chr6:33871800-33872600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
26	chr6:33871800-33872600	Bivalent Enhancer	Fetal Muscle Trunk	muscle
27	chr6:33871800-33872800	Enhancers	ES-I3 Cell Line	embryonic stem cell
28	chr6:33871800-33872800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr6:33871800-33873000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr6:33871800-33873200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
31	chr6:33871800-33873400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
32	chr6:33871800-33873400	Flanking Active TSS	Primary T cells fromperipheralblood	blood
33	chr6:33871800-33873400	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
34	chr6:33871800-33873600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr6:33871800-33873600	Enhancers	Cortex derived primary cultured neurospheres	brain
36	chr6:33871800-33873600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr6:33871800-33873800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
38	chr6:33871800-33873800	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
39	chr6:33871800-33875600	Enhancers	Breast Myoepithelial Primary Cells	Breast
40	chr6:33872000-33872400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
41	chr6:33872000-33872400	Enhancers	HUES6 Cell Line	embryonic stem cell
42	chr6:33872000-33872400	Enhancers	Primary T helper cells fromperipheralblood	blood
43	chr6:33872000-33873200	Enhancers	Primary neutrophils fromperipheralblood	blood
44	chr6:33872000-33873200	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood
45	chr6:33872200-33872400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
46	chr6:33872200-33872400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
47	chr6:33872200-33872400	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
48	chr6:33872200-33872600	Enhancers	iPS-18 Cell Line	embryonic stem cell
49	chr6:33872200-33872600	Enhancers	Primary T cells from cord blood	blood
50	chr6:33872200-33872600	Enhancers	Primary hematopoietic stem cells short term culture	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links