Variant report

Variant	rs6475609
Chromosome Location	chr9:22106271-22106272
allele	A/G
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:18)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:18 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:21827202..21829745-chr9:22105278..22107397,2	MCF-7	breast:
2	chr9:22098016..22100676-chr9:22106122..22109084,4	MCF-7	breast:
3	chr9:22105824..22107359-chr9:22208514..22210468,2	MCF-7	breast:
4	chr9:21834613..21838113-chr9:22103301..22107241,3	MCF-7	breast:
5	chr9:22078947..22090885-chr9:22096375..22111093,52	MCF-7	breast:
6	chr9:22101484..22107036-chr9:22107375..22109985,6	MCF-7	breast:
7	chr9:21993263..21997117-chr9:22103044..22108269,7	MCF-7	breast:
8	chr9:22080093..22089919-chr9:22099951..22109614,29	MCF-7	breast:
9	chr9:22105883..22107388-chr9:22237172..22239101,2	MCF-7	breast:
10	chr9:22100911..22107878-chr9:22236967..22244514,15	MCF-7	breast:
11	chr9:21813352..21815256-chr9:22105449..22107592,2	MCF-7	breast:
12	chr9:22039593..22042094-chr9:22105940..22108380,2	MCF-7	breast:
13	chr9:21994077..21998286-chr9:22100828..22106631,7	MCF-7	breast:
14	chr9:21802397..21805194-chr9:22105576..22110033,4	MCF-7	breast:
15	chr9:22101600..22106273-chr9:22113482..22120974,11	MCF-7	breast:
16	chr9:22102906..22108968-chr9:22209587..22214559,10	MCF-7	breast:
17	chr9:22104503..22107201-chr9:22240105..22242978,2	MCF-7	breast:
18	chr9:22105576..22108969-chr9:22134312..22138270,4	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000266446	Chromatin interaction
ENSG00000240498	Chromatin interaction
ENSG00000099810	Chromatin interaction
ENSG00000264545	Chromatin interaction
ENSG00000147889	Chromatin interaction

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs1004638	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10116277	0.85[EUR][1000 genomes]
rs10217586	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10511701	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10733376	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10738606	0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10738607	0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10738608	0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10738609	0.95[EUR][1000 genomes]
rs10738610	0.93[EUR][1000 genomes]
rs10757272	0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10757273	0.90[ASN][1000 genomes]
rs10757274	0.93[EUR][1000 genomes]
rs10757275	0.98[EUR][1000 genomes]
rs10757277	0.87[EUR][1000 genomes]
rs10757278	0.87[EUR][1000 genomes]
rs10757279	0.87[EUR][1000 genomes]
rs10811654	0.89[EUR][1000 genomes]
rs10811656	0.84[EUR][1000 genomes]
rs1333042	0.92[AFR][1000 genomes];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1333043	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1333046	0.93[EUR][1000 genomes]
rs1333047	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1333048	0.93[EUR][1000 genomes]
rs1333049	0.86[EUR][1000 genomes]
rs1412834	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1537370	0.84[EUR][1000 genomes]
rs1537371	1.00[AFR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1537373	0.92[AFR][1000 genomes];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1537374	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1537375	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1537376	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1556516	0.92[AFR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1970112	0.83[EUR][1000 genomes]
rs2210538	0.81[EUR][1000 genomes]
rs2383206	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2383207	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2891168	0.92[EUR][1000 genomes]
rs4977574	0.92[EUR][1000 genomes]
rs4977575	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4977757	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6475606	0.85[EUR][1000 genomes]
rs7341786	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7341791	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7857118	0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7857345	0.98[ASN][1000 genomes]
rs7859362	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7859727	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs944797	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9644860	0.81[EUR][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	nsv529609	chr9:21708371-22537069	Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv8426	chr9:21763810-22176200	Weak transcription Strong transcription Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv531617	chr9:21985057-22809676	Genic enhancers Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:22097800-22122400	Weak transcription	Dnd41	blood
2	chr9:22098000-22107600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr9:22099400-22107200	Weak transcription	Small Intestine	intestine
4	chr9:22101600-22109800	Enhancers	Fetal Intestine Large	intestine
5	chr9:22101600-22110000	Enhancers	Fetal Intestine Small	intestine
6	chr9:22101800-22106400	Enhancers	Duodenum Mucosa	Duodenum
7	chr9:22103600-22107200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr9:22104200-22107000	Weak transcription	HUES48 Cell Line	embryonic stem cell
9	chr9:22104200-22107600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr9:22104400-22107000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr9:22104400-22107200	Weak transcription	HUES64 Cell Line	embryonic stem cell
12	chr9:22104400-22108400	Weak transcription	Adipose Nuclei	Adipose
13	chr9:22104600-22106400	Weak transcription	Stomach Mucosa	stomach
14	chr9:22104600-22106600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr9:22104600-22106800	Weak transcription	NHEK	skin
16	chr9:22104600-22107000	Weak transcription	HUES6 Cell Line	embryonic stem cell
17	chr9:22104600-22107000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr9:22104600-22107000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr9:22104600-22107400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr9:22104600-22107600	Weak transcription	HUVEC	blood vessel
21	chr9:22104600-22116600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr9:22104800-22106800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr9:22105000-22106800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr9:22105000-22108000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr9:22105200-22107000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
26	chr9:22105200-22107000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr9:22105400-22106600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr9:22105400-22106800	Weak transcription	NH-A	brain
29	chr9:22105600-22106800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr9:22105600-22107000	Weak transcription	Muscle Satellite Cultured Cells	--
31	chr9:22105600-22107000	Weak transcription	Osteobl	bone
32	chr9:22105600-22108200	Weak transcription	NHDF-Ad	bronchial
33	chr9:22105800-22106800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
34	chr9:22105800-22106800	Weak transcription	HMEC	breast
35	chr9:22105800-22107000	Weak transcription	NHLF	lung
36	chr9:22105800-22107200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr9:22105800-22107200	Weak transcription	Sigmoid Colon	Sigmoid Colon
38	chr9:22105800-22107200	Weak transcription	HSMMtube	muscle
39	chr9:22105800-22107400	Weak transcription	HSMM	muscle
40	chr9:22105800-22114000	Weak transcription	Colonic Mucosa	Colon
41	chr9:22105800-22117400	Weak transcription	Placenta Amnion	Placenta Amnion
42	chr9:22106000-22107000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
43	chr9:22106000-22107000	Weak transcription	Rectal Mucosa Donor 31	rectum
44	chr9:22106000-22107600	Weak transcription	Rectal Mucosa Donor 29	rectum
45	chr9:22106200-22106600	Weak transcription	Hela-S3	cervix

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links