Variant report

Variant	rs9267576
Chromosome Location	chr6:31812038-31812039
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:31800755..31815108-chr6:31823340..31833266,54	K562	blood:
2	chr6:31810968..31813614-chr6:31853441..31855643,2	MCF-7	breast:
3	chr6:31810060..31812740-chr6:32077542..32080082,2	K562	blood:
4	chr6:31801090..31813654-chr6:31824519..31834411,41	MCF-7	breast:
5	chr6:31802543..31804424-chr6:31810927..31813867,2	MCF-7	breast:
6	chr6:31811833..31815343-chr6:31817409..31821248,7	K562	blood:
7	chr6:31810854..31812545-chr6:31814196..31816031,2	MCF-7	breast:
8	chr6:31800580..31812447-chr6:31823435..31837480,47	K562	blood:

No data

Variant related genes	Relation type
ENSG00000201823	Chromatin interaction
ENSG00000204371	Chromatin interaction
ENSG00000204387	Chromatin interaction
ENSG00000204386	Chromatin interaction
ENSG00000204385	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 42 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs1043620	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2736177	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2857600	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs3115669	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3128761	0.90[EUR][1000 genomes]
rs3130071	0.85[AMR][1000 genomes]
rs3130487	0.83[EUR][1000 genomes]
rs3130681	0.91[EUR][1000 genomes]
rs3130682	0.85[EUR][1000 genomes]
rs3130683	0.88[EUR][1000 genomes]
rs9267551	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9267658	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:25 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv601610	chr6:31280101-31960770	Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	370 gene(s)	inside rSNPs	diseases
2	nsv601628	chr6:31280327-31990098	Weak transcription Transcr. at gene 5' and 3' Active TSS Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	376 gene(s)	inside rSNPs	diseases
3	nsv601629	chr6:31280327-31996185	Strong transcription Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	376 gene(s)	inside rSNPs	diseases
4	nsv601630	chr6:31280327-32011317	Genic enhancers Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	378 gene(s)	inside rSNPs	diseases
5	nsv601631	chr6:31280327-32017540	Genic enhancers Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	378 gene(s)	inside rSNPs	diseases
6	nsv1023939	chr6:31325961-32026747	Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	372 gene(s)	inside rSNPs	diseases
7	nsv538188	chr6:31325961-32026747	Active TSS Weak transcription Flanking Active TSS Enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	372 gene(s)	inside rSNPs	diseases
8	nsv1021747	chr6:31386219-31907266	Flanking Active TSS Active TSS Bivalent Enhancer Weak transcription Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	330 gene(s)	inside rSNPs	diseases
9	nsv1033154	chr6:31550614-32009410	Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	326 gene(s)	inside rSNPs	diseases
10	nsv1017945	chr6:31609641-32481240	Genic enhancers Weak transcription Transcr. at gene 5' and 3' Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	322 gene(s)	inside rSNPs	diseases
11	esv3428142	chr6:31615800-31881809	Flanking Active TSS Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	257 gene(s)	inside rSNPs	diseases
12	nsv884428	chr6:31728102-31870326	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	162 gene(s)	inside rSNPs	diseases
13	nsv884429	chr6:31730356-31837066	Enhancers Transcr. at gene 5' and 3' Strong transcription Active TSS Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	155 gene(s)	inside rSNPs	diseases
14	nsv462872	chr6:31778272-31864304	Enhancers Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
15	nsv601945	chr6:31778272-31864304	Flanking Active TSS Strong transcription Weak transcription Genic enhancers Enhancers Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
16	nsv601950	chr6:31785438-32492308	Enhancers Bivalent Enhancer Active TSS Weak transcription Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	197 gene(s)	inside rSNPs	diseases
17	nsv601951	chr6:31785438-32496748	Enhancers Flanking Active TSS Strong transcription Weak transcription Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	197 gene(s)	inside rSNPs	diseases
18	nsv884461	chr6:31785453-31827045	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	117 gene(s)	inside rSNPs	diseases
19	nsv601955	chr6:31785453-32484368	Genic enhancers Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	196 gene(s)	inside rSNPs	diseases
20	nsv601956	chr6:31785453-32492308	Strong transcription Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	197 gene(s)	inside rSNPs	diseases
21	nsv462874	chr6:31794592-31864304	Enhancers Weak transcription Genic enhancers Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	118 gene(s)	inside rSNPs	diseases
22	nsv601959	chr6:31794592-31864304	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	118 gene(s)	inside rSNPs	diseases
23	nsv884463	chr6:31797422-31827045	Active TSS Enhancers Flanking Active TSS Strong transcription Weak transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
24	nsv884464	chr6:31805389-31817114	Weak transcription Genic enhancers Transcr. at gene 5' and 3' Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	24 gene(s)	inside rSNPs	diseases
25	nsv884465	chr6:31805389-31818580	Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region	24 gene(s)	inside rSNPs	diseases

mRNA abundance (count:42)

SNP	Gene	Cis/trans	Tissue	Source
rs9267576	XXbac-BPG248L24.12	cis	Thyroid	GTEx
rs9267576	HLA-DRB5	cis	Adipose Subcutaneous	GTEx
rs9267576	HLA-DRB6	cis	Artery Aorta	GTEx
rs9267576	HLA-DRB1	cis	Adipose Subcutaneous	GTEx
rs9267576	HLA-C	cis	Muscle Skeletal	GTEx
rs9267576	HLA-DQA2	cis	Whole Blood	GTEx
rs9267576	XXbac-BPG248L24.12	cis	Adipose Subcutaneous	GTEx
rs9267576	HLA-DQA1	cis	lymphoblastoid	GTEx
rs9267576	HLA-DRB5	cis	Artery Tibial	GTEx
rs9267576	HLA-C	cis	Esophagus Muscularis	GTEx
rs9267576	HLA-DRB5	cis	Thyroid	GTEx
rs9267576	HLA-DQB1	cis	lymphoblastoid	seeQTL
rs9267576	XXbac-BPG248L24.12	cis	Artery Tibial	GTEx
rs9267576	HLA-DRB5	cis	cerebellum	SCAN
rs9267576	HLA-DRB1	cis	Thyroid	GTEx
rs9267576	HLA-DRB6	cis	Whole Blood	GTEx
rs9267576	LEMD2	cis	cerebellum	SCAN
rs9267576	XXbac-BPG248L24.12	cis	lung	GTEx
rs9267576	HLA-DRB1	cis	Whole Blood	GTEx
rs9267576	HLA-C	cis	Whole Blood	GTEx
rs9267576	HLA-C	cis	lymphoblastoid	GTEx
rs9267576	HLA-DRB5	cis	lymphoblastoid	seeQTL
rs9267576	HLA-DRB1	cis	Muscle Skeletal	GTEx
rs9267576	HLA-DRB6	cis	Muscle Skeletal	GTEx
rs9267576	HLA-DRB5	cis	parietal	SCAN
rs9267576	XXbac-BPG248L24.12	cis	Artery Aorta	GTEx
rs9267576	HLA-DRB6	cis	Thyroid	GTEx
rs9267576	XXbac-BPG248L24.12	cis	Muscle Skeletal	GTEx
rs9267576	TEAD3	cis	cerebellum	SCAN
rs9267576	XXbac-BPG248L24.12	cis	Heart Left Ventricle	GTEx
rs9267576	HLA-DRB5	cis	lymphoblastoid	GTEx
rs9267576	HLA-B	cis	Whole Blood	GTEx
rs9267576	XXbac-BPG248L24.12	cis	Esophagus Mucosa	GTEx
rs9267576	HLA-DRB5	cis	Whole Blood	GTEx
rs9267576	HLA-DQB1	cis	lymphoblastoid	GTEx
rs9267576	HLA-DRB1	cis	Skin Sun Exposed Lower leg	GTEx
rs9267576	HLA-DRB5	cis	Muscle Skeletal	GTEx
rs9267576	HLA-DRB5	cis	Skin Sun Exposed Lower leg	GTEx
rs9267576	XXbac-BPG248L24.12	cis	Esophagus Muscularis	GTEx
rs9267576	XXbac-BPG248L24.12	cis	Whole Blood	GTEx
rs9267576	HLA-DQB1	cis	Thyroid	GTEx
rs9267576	HLA-DRB1	cis	lymphoblastoid	seeQTL

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:31803000-31817200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr6:31807000-31813800	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr6:31807000-31829200	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr6:31807200-31813600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr6:31807400-31815000	Weak transcription	Hela-S3	cervix
6	chr6:31807400-31824800	Weak transcription	Brain Angular Gyrus	brain
7	chr6:31807400-31829400	Weak transcription	Fetal Brain Male	brain
8	chr6:31807400-31829600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
9	chr6:31807800-31812400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr6:31807800-31825000	Weak transcription	Primary hematopoietic stem cells	blood
11	chr6:31807800-31826600	Weak transcription	Right Ventricle	heart
12	chr6:31807800-31827800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
13	chr6:31808000-31812400	Strong transcription	Thymus	Thymus
14	chr6:31808000-31826600	Weak transcription	Fetal Kidney	kidney
15	chr6:31808000-31827000	Weak transcription	Small Intestine	intestine
16	chr6:31808000-31829400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
17	chr6:31808000-31829400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
18	chr6:31808000-31829800	Weak transcription	Psoas Muscle	Psoas
19	chr6:31808200-31813800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr6:31808200-31826800	Weak transcription	NHDF-Ad	bronchial
21	chr6:31808600-31819000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
22	chr6:31808600-31823000	Weak transcription	Brain Cingulate Gyrus	brain
23	chr6:31808600-31825000	Weak transcription	Brain Anterior Caudate	brain
24	chr6:31808600-31825000	Weak transcription	Rectal Mucosa Donor 31	rectum
25	chr6:31808600-31825200	Weak transcription	Aorta	Aorta
26	chr6:31808600-31826600	Weak transcription	Dnd41	blood
27	chr6:31808600-31827000	Weak transcription	NHEK	skin
28	chr6:31808600-31827600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
29	chr6:31808800-31812400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr6:31808800-31814200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr6:31808800-31816600	Weak transcription	GM12878-XiMat	blood
32	chr6:31808800-31819200	Weak transcription	A549	lung
33	chr6:31808800-31819200	Weak transcription	NH-A	brain
34	chr6:31808800-31819600	Weak transcription	Gastric	stomach
35	chr6:31808800-31820600	Weak transcription	Colon Smooth Muscle	Colon
36	chr6:31808800-31823200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr6:31808800-31824800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
38	chr6:31808800-31824800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr6:31808800-31824800	Weak transcription	Brain Inferior Temporal Lobe	brain
40	chr6:31808800-31825000	Weak transcription	Brain Substantia Nigra	brain
41	chr6:31808800-31825000	Weak transcription	HSMMtube	muscle
42	chr6:31808800-31825200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr6:31808800-31825200	Weak transcription	Skeletal Muscle Male	skeletal muscle
44	chr6:31808800-31825400	Weak transcription	Primary T helper cells fromperipheralblood	blood
45	chr6:31808800-31826600	Weak transcription	Primary B cells from cord blood	blood
46	chr6:31808800-31826600	Weak transcription	Rectal Smooth Muscle	rectum
47	chr6:31808800-31827200	Weak transcription	HMEC	breast
48	chr6:31808800-31827200	Weak transcription	HSMM	muscle
49	chr6:31808800-31829600	Weak transcription	HUVEC	blood vessel
50	chr6:31809000-31819000	Weak transcription	Liver	Liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links