Variant report

Variant	rs889226
Chromosome Location	chr5:95144589-95144590
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:95140024..95141907-chr5:95144179..95145770,2	MCF-7	breast:
2	chr5:95097577..95099971-chr5:95142843..95145150,2	K562	blood:
3	chr5:95144281..95145870-chr5:95178022..95180919,2	MCF-7	breast:

Extended variants
information (count: 13 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11135434	0.80[ASN][1000 genomes]
rs11953653	0.80[ASN][1000 genomes]
rs2007	0.85[CEU][hapmap];0.89[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2348974	0.80[ASN][1000 genomes]
rs6556883	0.80[AMR][1000 genomes]
rs6866544	0.80[ASN][1000 genomes]
rs7736948	0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs889224	0.86[ASN][1000 genomes]
rs889225	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830409	chr5:95006686-95204496	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv1015180	chr5:95134357-95286446	Strong transcription Flanking Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
3	nsv462255	chr5:95142817-95168155	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	7 gene(s)	inside rSNPs	diseases
4	nsv598961	chr5:95142817-95168155	Enhancers Flanking Active TSS Genic enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:107 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:95115400-95157000	Weak transcription	Aorta	Aorta
2	chr5:95121000-95156800	Weak transcription	Brain Germinal Matrix	brain
3	chr5:95124600-95154400	Weak transcription	Brain Angular Gyrus	brain
4	chr5:95125000-95154400	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr5:95127800-95149200	Weak transcription	Fetal Brain Female	brain
6	chr5:95130000-95145000	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr5:95130000-95145000	Weak transcription	Brain Cingulate Gyrus	brain
8	chr5:95130000-95157400	Weak transcription	Ovary	ovary
9	chr5:95130400-95146000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr5:95133600-95147800	Weak transcription	K562	blood
11	chr5:95139600-95144600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr5:95139600-95145400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr5:95139800-95154200	Weak transcription	Pancreas	Pancrea
14	chr5:95141000-95144800	Weak transcription	Liver	Liver
15	chr5:95141200-95144600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr5:95141200-95145000	Weak transcription	Brain Hippocampus Middle	brain
17	chr5:95141400-95145400	Weak transcription	HepG2	liver
18	chr5:95142800-95148000	Enhancers	Primary T helper cells fromperipheralblood	blood
19	chr5:95143000-95148600	Enhancers	Primary T killer memory cells from peripheral blood	blood
20	chr5:95143200-95144800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
21	chr5:95143200-95145600	Enhancers	Fetal Muscle Leg	muscle
22	chr5:95143200-95147600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
23	chr5:95143200-95148400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
24	chr5:95143200-95153600	Genic enhancers	Fetal Thymus	thymus
25	chr5:95143400-95144800	Enhancers	Primary hematopoietic stem cells short term culture	blood
26	chr5:95143400-95144800	Enhancers	Fetal Muscle Trunk	muscle
27	chr5:95143400-95148000	Enhancers	Sigmoid Colon	Sigmoid Colon
28	chr5:95143600-95144800	Enhancers	Spleen	Spleen
29	chr5:95143600-95146000	Genic enhancers	Fetal Intestine Small	intestine
30	chr5:95143600-95146600	Enhancers	Fetal Stomach	stomach
31	chr5:95143600-95146800	Enhancers	Colonic Mucosa	Colon
32	chr5:95143600-95147000	Enhancers	Small Intestine	intestine
33	chr5:95143600-95147800	Enhancers	Primary hematopoietic stem cells	blood
34	chr5:95143800-95144600	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr5:95143800-95144600	Enhancers	Right Atrium	heart
36	chr5:95143800-95144800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr5:95143800-95144800	Enhancers	Colon Smooth Muscle	Colon
38	chr5:95143800-95145000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
39	chr5:95143800-95145000	Flanking Active TSS	Primary T cells from cord blood	blood
40	chr5:95143800-95145000	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
41	chr5:95143800-95145600	Genic enhancers	HSMM	muscle
42	chr5:95143800-95145800	Enhancers	Primary monocytes fromperipheralblood	blood
43	chr5:95143800-95145800	Enhancers	Brain Anterior Caudate	brain
44	chr5:95143800-95146200	Flanking Active TSS	Stomach Smooth Muscle	stomach
45	chr5:95143800-95146200	Enhancers	A549	lung
46	chr5:95143800-95146600	Enhancers	Placenta	Placenta
47	chr5:95143800-95146800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr5:95143800-95147200	Enhancers	Stomach Mucosa	stomach
49	chr5:95143800-95147800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
50	chr5:95143800-95147800	Enhancers	Fetal Intestine Large	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links