Variant report

Variant	rs29231
Chromosome Location	chr6:29618525-29618526
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:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:29593421..29596019-chr6:29617479..29619432,2	K562	blood:
2	chr6:29608179..29610477-chr6:29617988..29619609,2	K562	blood:
3	chr6:29598640..29604637-chr6:29614654..29620933,9	K562	blood:
4	chr6:29608179..29609839-chr6:29617502..29619488,2	K562	blood:
5	chr6:29616642..29621245-chr6:29621568..29627231,6	K562	blood:
6	chr6:29617940..29618834-chr6:29653305..29654103,4	MCF-7	breast:
7	chr6:29593197..29596046-chr6:29616000..29618979,4	K562	blood:
8	chr6:29615912..29617460-chr6:29617899..29619662,2	MCF-7	breast:
9	chr6:29598560..29601918-chr6:29614006..29619393,6	K562	blood:

No data

Variant related genes	Relation type
ENSG00000204655	Chromatin interaction
ENSG00000235238	Chromatin interaction
ENSG00000204681	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs1122947	0.99[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1984840	0.99[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2079898	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2262263	0.81[ASN][1000 genomes]
rs2517913	0.86[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs2535245	0.82[AFR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2535246	0.99[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2535260	0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2735063	0.81[EUR][1000 genomes]
rs2747425	0.88[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs2747453	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2747455	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs29273	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2982837	0.97[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3095287	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3129041	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3129074	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3129087	0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3129090	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3131879	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3131881	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3131882	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6456993	0.83[EUR][1000 genomes]
rs6941117	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7738159	0.81[ASN][1000 genomes]
rs7774576	0.81[ASN][1000 genomes]
rs7776296	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9257931	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9258093	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9258094	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9258102	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9258106	0.81[ASN][1000 genomes]
rs9258111	0.81[ASN][1000 genomes]
rs9258114	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9258126	0.82[EUR][1000 genomes]
rs9258127	0.82[EUR][1000 genomes]
rs9258131	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	esv2758039	chr6:29469101-29672665	Flanking Active TSS Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
2	esv2759411	chr6:29469101-29672665	Active TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	nsv527037	chr6:29615822-29624112	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:29616400-29618600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
2	chr6:29617800-29619600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr6:29617800-29622800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr6:29618000-29618600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr6:29618000-29618600	Enhancers	Primary monocytes fromperipheralblood	blood
6	chr6:29618000-29618800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
7	chr6:29618000-29618800	Enhancers	Primary T killer memory cells from peripheral blood	blood
8	chr6:29618000-29619600	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr6:29618000-29620200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr6:29618000-29623200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr6:29618000-29624000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr6:29618200-29618600	Enhancers	Primary T cells fromperipheralblood	blood
13	chr6:29618200-29618800	Enhancers	HUES64 Cell Line	embryonic stem cell
14	chr6:29618200-29619400	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr6:29618400-29618600	Enhancers	HUES6 Cell Line	embryonic stem cell
16	chr6:29618400-29618600	Enhancers	Breast Myoepithelial Primary Cells	Breast
17	chr6:29618400-29618600	Enhancers	Primary T helper cells fromperipheralblood	blood
18	chr6:29618400-29618600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr6:29618400-29618600	Enhancers	Brain Substantia Nigra	brain
20	chr6:29618400-29618600	Enhancers	Colon Smooth Muscle	Colon
21	chr6:29618400-29618600	Enhancers	A549	lung
22	chr6:29618400-29618600	Enhancers	Osteobl	bone
23	chr6:29618400-29618800	Enhancers	Brain Hippocampus Middle	brain
24	chr6:29618400-29619200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
25	chr6:29618400-29619200	Weak transcription	Dnd41	blood
26	chr6:29618400-29619400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
27	chr6:29618400-29619400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
28	chr6:29618400-29619400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
29	chr6:29618400-29619400	Weak transcription	Primary T helper cells PMA-I stimulated	--
30	chr6:29618400-29619400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr6:29618400-29619400	Weak transcription	Rectal Mucosa Donor 31	rectum
32	chr6:29618400-29619400	Weak transcription	HepG2	liver
33	chr6:29618400-29619400	Weak transcription	HMEC	breast
34	chr6:29618400-29619400	Weak transcription	NHEK	skin
35	chr6:29618400-29619600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
36	chr6:29618400-29619800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr6:29618400-29619800	Weak transcription	Stomach Mucosa	stomach
38	chr6:29618400-29620000	Weak transcription	Fetal Heart	heart
39	chr6:29618400-29620000	Weak transcription	Pancreas	Pancrea
40	chr6:29618400-29620400	Weak transcription	Liver	Liver
41	chr6:29618400-29620800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
42	chr6:29618400-29620800	Weak transcription	Brain Angular Gyrus	brain
43	chr6:29618400-29620800	Weak transcription	Brain Anterior Caudate	brain
44	chr6:29618400-29621000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
45	chr6:29618400-29621000	Weak transcription	Pancreatic Islets	Pancreatic Islet
46	chr6:29618400-29621200	Weak transcription	Primary B cells from peripheral blood	blood
47	chr6:29618400-29621200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
48	chr6:29618400-29621200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
49	chr6:29618400-29621200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
50	chr6:29618400-29621200	Weak transcription	Brain Inferior Temporal Lobe	brain

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