Variant report

Variant	rs1900300
Chromosome Location	chr6:149641627-149641628
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:149564226..149566619-chr6:149641623..149643146,2	K562	blood:
2	chr6:149351823..149355344-chr6:149638842..149641991,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000225924	Chromatin interaction
ENSG00000236591	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs11155639	0.82[CEU][hapmap];0.93[CHB][hapmap];0.81[JPT][hapmap];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11155641	0.96[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11155644	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11964335	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13219868	0.96[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1446556	0.82[CEU][hapmap];0.93[CHB][hapmap];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1626823	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs237010	0.85[CEU][hapmap]
rs237012	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs237016	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs237018	0.86[EUR][1000 genomes]
rs237019	0.85[CHB][hapmap];0.82[JPT][hapmap];0.86[EUR][1000 genomes]
rs237024	0.86[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs237025	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs237026	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs237028	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs237029	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs237034	0.82[EUR][1000 genomes]
rs237035	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs366905	0.80[EUR][1000 genomes]
rs372205	0.88[CEU][hapmap]
rs4895787	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6570963	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6570964	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6906384	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6922130	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6942381	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7752555	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7753269	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs805026	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.81[ASN][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	nsv1024776	chr6:149398652-149654593	Weak transcription Active TSS Bivalent Enhancer Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv1015360	chr6:149609804-149649982	Weak transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv1024106	chr6:149622349-149745053	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149637400-149642000	Active TSS	Breast Myoepithelial Primary Cells	Breast
2	chr6:149637400-149642600	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr6:149637600-149642000	Active TSS	GM12878-XiMat	blood
4	chr6:149639800-149641800	Flanking Active TSS	Dnd41	blood
5	chr6:149639800-149642000	Flanking Active TSS	Primary T cells from cord blood	blood
6	chr6:149639800-149643400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr6:149640000-149642200	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
8	chr6:149640000-149649400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr6:149640200-149641800	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
10	chr6:149640200-149645600	Weak transcription	Left Ventricle	heart
11	chr6:149640200-149655400	Weak transcription	Esophagus	oesophagus
12	chr6:149640200-149655600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr6:149640400-149642000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr6:149640400-149642200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr6:149640400-149642800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
16	chr6:149640400-149645600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr6:149640400-149648600	Weak transcription	Right Ventricle	heart
18	chr6:149640600-149642000	Weak transcription	Colonic Mucosa	Colon
19	chr6:149640600-149642400	Enhancers	Primary neutrophils fromperipheralblood	blood
20	chr6:149640600-149642400	Enhancers	Primary B cells from peripheral blood	blood
21	chr6:149640600-149642600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr6:149640600-149645800	Weak transcription	Fetal Muscle Leg	muscle
23	chr6:149640600-149648600	Weak transcription	Skeletal Muscle Male	skeletal muscle
24	chr6:149640800-149641800	Enhancers	Adipose Nuclei	Adipose
25	chr6:149640800-149642000	Weak transcription	HUES6 Cell Line	embryonic stem cell
26	chr6:149640800-149642200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr6:149640800-149642200	Weak transcription	Rectal Mucosa Donor 31	rectum
28	chr6:149640800-149642200	Enhancers	Skeletal Muscle Female	skeletal muscle
29	chr6:149640800-149642400	Enhancers	Fetal Brain Male	brain
30	chr6:149640800-149643400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr6:149640800-149645400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr6:149640800-149645600	Weak transcription	Fetal Intestine Small	intestine
33	chr6:149640800-149649000	Weak transcription	Thymus	Thymus
34	chr6:149640800-149652800	Weak transcription	H1 Cell Line	embryonic stem cell
35	chr6:149640800-149653200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr6:149641000-149642000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr6:149641000-149642000	Weak transcription	NHDF-Ad	bronchial
38	chr6:149641000-149642200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
39	chr6:149641000-149642200	Enhancers	Ovary	ovary
40	chr6:149641000-149642200	Weak transcription	HSMM	muscle
41	chr6:149641000-149642200	Enhancers	K562	blood
42	chr6:149641000-149642400	Enhancers	Primary monocytes fromperipheralblood	blood
43	chr6:149641000-149642800	Enhancers	Cortex derived primary cultured neurospheres	brain
44	chr6:149641000-149642800	Enhancers	Fetal Lung	lung
45	chr6:149641000-149643000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr6:149641000-149643000	Enhancers	HUES64 Cell Line	embryonic stem cell
47	chr6:149641000-149643000	Enhancers	Colon Smooth Muscle	Colon
48	chr6:149641000-149643000	Enhancers	HepG2	liver
49	chr6:149641000-149643200	Enhancers	Fetal Heart	heart
50	chr6:149641000-149648400	Weak transcription	Fetal Intestine Large	intestine

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