Variant report

Variant	rs7555486
Chromosome Location	chr1:85918970-85918971
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:85913232..85915386-chr1:85917552..85919124,2	K562	blood:
2	chr1:85917225..85920485-chr1:85926526..85929082,3	MCF-7	breast:

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10493764	0.86[CEU][hapmap]
rs12402128	0.82[CEU][hapmap]
rs12717764	0.87[CEU][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13373844	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1523993	0.86[CEU][hapmap];0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17388780	1.00[CHB][hapmap];0.87[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs17389112	0.90[CEU][hapmap];0.80[ASN][1000 genomes]
rs35294786	0.80[EUR][1000 genomes]
rs35876501	0.80[EUR][1000 genomes]
rs36062892	0.82[AFR][1000 genomes]
rs36104818	0.81[EUR][1000 genomes]
rs61223539	0.80[ASN][1000 genomes]
rs61769490	0.80[EUR][1000 genomes]
rs61783057	0.80[ASN][1000 genomes]
rs6659486	0.80[EUR][1000 genomes]
rs6673833	0.90[CEU][hapmap];0.95[YRI][hapmap];0.87[AFR][1000 genomes];0.81[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1006994	chr1:85454304-86327679	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
2	nsv830470	chr1:85820775-86014080	Enhancers Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:62 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:85901400-85923000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr1:85907000-85919600	Weak transcription	Right Atrium	heart
3	chr1:85913800-85920400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr1:85914200-85924800	Weak transcription	Duodenum Mucosa	Duodenum
5	chr1:85915000-85919200	Weak transcription	HSMMtube	muscle
6	chr1:85915200-85919600	Weak transcription	Aorta	Aorta
7	chr1:85915200-85927800	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr1:85915400-85919000	Weak transcription	Brain Hippocampus Middle	brain
9	chr1:85915400-85919000	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr1:85915400-85919200	Weak transcription	Brain Substantia Nigra	brain
11	chr1:85915400-85919400	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr1:85915600-85919000	Weak transcription	NHLF	lung
13	chr1:85915600-85919200	Weak transcription	Brain Angular Gyrus	brain
14	chr1:85915600-85920200	Weak transcription	Brain Cingulate Gyrus	brain
15	chr1:85915600-85925400	Weak transcription	Brain Germinal Matrix	brain
16	chr1:85915800-85920600	Weak transcription	Small Intestine	intestine
17	chr1:85916400-85919000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr1:85916400-85920200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr1:85916400-85921800	Enhancers	Liver	Liver
20	chr1:85916600-85920000	Genic enhancers	Osteobl	bone
21	chr1:85916800-85919200	Enhancers	Brain Anterior Caudate	brain
22	chr1:85917000-85922200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr1:85917000-85923000	Weak transcription	Psoas Muscle	Psoas
24	chr1:85917200-85920000	Weak transcription	H1 Cell Line	embryonic stem cell
25	chr1:85917400-85919000	Weak transcription	Pancreas	Pancrea
26	chr1:85917400-85919000	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr1:85917400-85919400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr1:85917400-85919600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr1:85917400-85919600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr1:85917400-85919600	Weak transcription	Lung	lung
31	chr1:85917400-85919600	Weak transcription	Skeletal Muscle Female	skeletal muscle
32	chr1:85917400-85920000	Enhancers	Cortex derived primary cultured neurospheres	brain
33	chr1:85917400-85922400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr1:85917400-85926400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr1:85917400-85929400	Weak transcription	Fetal Muscle Leg	muscle
36	chr1:85917400-85929400	Weak transcription	Gastric	stomach
37	chr1:85917400-85929800	Weak transcription	Esophagus	oesophagus
38	chr1:85917600-85921600	Enhancers	Fetal Lung	lung
39	chr1:85917800-85919000	Weak transcription	HUVEC	blood vessel
40	chr1:85917800-85919400	Enhancers	Fetal Kidney	kidney
41	chr1:85917800-85919600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
42	chr1:85917800-85927200	Weak transcription	NH-A	brain
43	chr1:85917800-85928800	Weak transcription	HUES6 Cell Line	embryonic stem cell
44	chr1:85918200-85920600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
45	chr1:85918200-85921400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr1:85918400-85919200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr1:85918400-85919200	Enhancers	Rectal Mucosa Donor 31	rectum
48	chr1:85918400-85919800	Enhancers	Rectal Smooth Muscle	rectum
49	chr1:85918400-85920000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr1:85918400-85920000	Enhancers	Fetal Intestine Large	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links