Variant report

Variant	rs6879270
Chromosome Location	chr5:79511646-79511647
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	chr5:79508171..79510713-chr5:79510900..79513026,2	MCF-7	breast:

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs10036776	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10055268	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10061215	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12519047	0.80[JPT][hapmap]
rs16877612	1.00[CHB][hapmap];0.95[JPT][hapmap];0.99[ASN][1000 genomes]
rs4235717	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4703805	0.87[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs4704633	0.81[JPT][hapmap]
rs60316437	0.92[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432748	chr5:79300434-79577760	Enhancers Genic enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:79490800-79513800	Weak transcription	Fetal Kidney	kidney
2	chr5:79497400-79515000	Weak transcription	Esophagus	oesophagus
3	chr5:79498600-79520800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr5:79498600-79521200	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr5:79498800-79514000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr5:79499000-79513200	Weak transcription	Rectal Smooth Muscle	rectum
7	chr5:79499000-79517800	Weak transcription	Aorta	Aorta
8	chr5:79500000-79537600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
9	chr5:79500200-79512000	Weak transcription	Fetal Muscle Trunk	muscle
10	chr5:79501000-79512000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
11	chr5:79501000-79513200	Weak transcription	Stomach Smooth Muscle	stomach
12	chr5:79501400-79515000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr5:79501600-79513200	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr5:79501600-79516800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
15	chr5:79502000-79516200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr5:79502400-79513200	Weak transcription	Fetal Lung	lung
17	chr5:79502600-79515200	Weak transcription	HSMMtube	muscle
18	chr5:79502800-79513200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr5:79503600-79513000	Weak transcription	Osteobl	bone
20	chr5:79504000-79513000	Weak transcription	Duodenum Smooth Muscle	Duodenum
21	chr5:79504600-79512000	Weak transcription	Colon Smooth Muscle	Colon
22	chr5:79505200-79513000	Weak transcription	Fetal Brain Male	brain
23	chr5:79505800-79512200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
24	chr5:79505800-79513200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
25	chr5:79506400-79513200	Enhancers	Primary T helper cells fromperipheralblood	blood
26	chr5:79506400-79516400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr5:79506600-79513200	Weak transcription	Stomach Mucosa	stomach
28	chr5:79506600-79513400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
29	chr5:79507000-79512600	Enhancers	Primary T helper naive cells from peripheral blood	blood
30	chr5:79507000-79513200	Weak transcription	Dnd41	blood
31	chr5:79507000-79516400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr5:79507200-79515000	Weak transcription	Fetal Stomach	stomach
33	chr5:79507600-79512000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr5:79507800-79513200	Weak transcription	H9 Cell Line	embryonic stem cell
35	chr5:79507800-79513200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
36	chr5:79507800-79515000	Weak transcription	Lung	lung
37	chr5:79508000-79513200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
38	chr5:79508000-79515200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
39	chr5:79508200-79511800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
40	chr5:79508400-79513000	Weak transcription	HUES48 Cell Line	embryonic stem cell
41	chr5:79508400-79513200	Weak transcription	HUES64 Cell Line	embryonic stem cell
42	chr5:79508600-79512400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
43	chr5:79508600-79513200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
44	chr5:79508600-79515000	Weak transcription	Fetal Intestine Small	intestine
45	chr5:79508600-79516200	Weak transcription	Colonic Mucosa	Colon
46	chr5:79508800-79513200	Enhancers	Liver	Liver
47	chr5:79509000-79512400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
48	chr5:79509400-79512000	Weak transcription	Fetal Muscle Leg	muscle
49	chr5:79509400-79516000	Weak transcription	Fetal Intestine Large	intestine
50	chr5:79509600-79512000	Enhancers	Primary T cells from cord blood	blood

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