Variant report

Variant	rs4886877
Chromosome Location	chr15:77838535-77838536
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:77837272..77839702-chr15:77860514..77863715,3	MCF-7	breast:
2	chr15:77837146..77840341-chr15:77840841..77844639,4	K562	blood:
3	chr15:77838034..77840169-chr15:77924048..77926294,2	K562	blood:

Variant related genes	Relation type
ENSG00000259420	Chromatin interaction
ENSG00000169783	Chromatin interaction

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs1005752	0.91[JPT][hapmap]
rs11072653	0.81[JPT][hapmap]
rs11633054	0.91[JPT][hapmap]
rs11854328	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.84[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11855188	0.94[AFR][1000 genomes];0.81[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11857450	0.91[JPT][hapmap]
rs11857860	0.88[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1191196	0.81[JPT][hapmap]
rs12324627	0.95[JPT][hapmap]
rs12900004	1.00[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.89[GIH][hapmap];0.95[JPT][hapmap];0.97[TSI][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12901130	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12901503	0.91[JPT][hapmap]
rs12907746	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1473922	0.81[JPT][hapmap]
rs1565756	0.81[JPT][hapmap]
rs2055901	0.91[JPT][hapmap]
rs34591043	0.81[JPT][hapmap]
rs4886866	0.81[JPT][hapmap]
rs4886869	0.91[JPT][hapmap]
rs4886873	0.84[CEU][hapmap];0.81[CHB][hapmap]
rs4886875	0.88[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];1.00[TSI][hapmap];0.89[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4886876	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62009090	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6495240	1.00[JPT][hapmap]
rs7162637	1.00[CEU][hapmap];0.90[CHB][hapmap];0.87[JPT][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7170877	0.80[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7178572	0.91[JPT][hapmap]
rs8024485	0.81[JPT][hapmap]
rs8034133	0.91[JPT][hapmap]
rs907369	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs907372	0.85[CHB][hapmap];0.86[JPT][hapmap]
rs907388	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1040852	chr15:77160237-78137541	Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv916323	chr15:77485765-78121259	Enhancers Strong transcription Weak transcription Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv1043284	chr15:77740632-77884026	Weak transcription Strong transcription Genic enhancers Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
4	nsv570139	chr15:77762493-77865459	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
5	nsv570140	chr15:77787469-77851535	Flanking Active TSS Weak transcription Active TSS Enhancers Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv833060	chr15:77816654-78035204	Weak transcription Bivalent Enhancer Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
7	esv1806097	chr15:77817889-78301377	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:63 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:77827000-77845400	Weak transcription	Fetal Kidney	kidney
2	chr15:77829400-77844800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr15:77833800-77843200	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr15:77834000-77841200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr15:77834200-77840800	Weak transcription	HUES48 Cell Line	embryonic stem cell
6	chr15:77836200-77839000	Enhancers	Stomach Mucosa	stomach
7	chr15:77836200-77839600	Weak transcription	Brain Hippocampus Middle	brain
8	chr15:77836200-77840400	Weak transcription	Primary neutrophils fromperipheralblood	blood
9	chr15:77836200-77841000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr15:77836200-77841000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
11	chr15:77836200-77841000	Weak transcription	Fetal Thymus	thymus
12	chr15:77836200-77841200	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr15:77836200-77841200	Weak transcription	K562	blood
14	chr15:77836200-77841400	Weak transcription	Brain Anterior Caudate	brain
15	chr15:77836200-77846600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr15:77836800-77838600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr15:77837000-77840400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr15:77837600-77838800	Enhancers	Gastric	stomach
19	chr15:77837600-77839000	Enhancers	NHLF	lung
20	chr15:77837800-77839000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr15:77837800-77839000	Enhancers	HSMM	muscle
22	chr15:77837800-77839000	Enhancers	HSMMtube	muscle
23	chr15:77837800-77839000	Enhancers	Osteobl	bone
24	chr15:77837800-77839200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr15:77837800-77839200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr15:77837800-77839800	Enhancers	Fetal Heart	heart
27	chr15:77838000-77838800	Enhancers	NHEK	skin
28	chr15:77838000-77839000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr15:77838000-77839000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr15:77838000-77839000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr15:77838000-77839000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr15:77838000-77839000	Enhancers	Muscle Satellite Cultured Cells	--
33	chr15:77838000-77839000	Enhancers	Fetal Muscle Leg	muscle
34	chr15:77838000-77839000	Enhancers	Placenta	Placenta
35	chr15:77838000-77839000	Enhancers	Right Atrium	heart
36	chr15:77838000-77839000	Enhancers	Spleen	Spleen
37	chr15:77838000-77839000	Enhancers	Hela-S3	cervix
38	chr15:77838000-77839000	Enhancers	NH-A	brain
39	chr15:77838000-77839200	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr15:77838000-77839200	Enhancers	Left Ventricle	heart
41	chr15:77838000-77839200	Enhancers	HMEC	breast
42	chr15:77838000-77839200	Enhancers	NHDF-Ad	bronchial
43	chr15:77838000-77839800	Enhancers	Right Ventricle	heart
44	chr15:77838200-77838600	Enhancers	HUES6 Cell Line	embryonic stem cell
45	chr15:77838200-77838800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
46	chr15:77838200-77838800	Enhancers	Placenta Amnion	Placenta Amnion
47	chr15:77838200-77839000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
48	chr15:77838200-77839000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr15:77838200-77839000	Enhancers	Primary hematopoietic stem cells short term culture	blood
50	chr15:77838200-77839000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin

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