Variant report

Variant	rs17742342
Chromosome Location	chr2:148633936-148633937
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:148631936..148634646-chr2:148640576..148642196,2	K562	blood:

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs1234398	0.87[CEU][hapmap];0.92[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap]
rs1234399	0.80[JPT][hapmap]
rs1234414	0.87[CEU][hapmap];0.85[CHB][hapmap];1.00[YRI][hapmap]
rs1234417	1.00[YRI][hapmap]
rs1424941	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1469211	0.93[CEU][hapmap];0.85[CHB][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17218938	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17225402	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17225423	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17225430	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17232078	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17691284	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17692648	0.87[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17741344	0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17741978	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17742134	1.00[CEU][hapmap];0.85[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17742246	1.00[CEU][hapmap];0.85[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17743157	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1994189	0.87[CEU][hapmap];0.92[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap]
rs3754541	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3820715	0.87[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62169472	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62169473	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62169474	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62169475	0.81[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs62169477	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62169478	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62169479	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62169480	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62169481	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62169482	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62169483	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6747792	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs721344	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs730356	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7560502	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7595052	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7602296	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs929940	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs981814	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[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	nsv875275	chr2:148166428-148711242	Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv916286	chr2:148438001-148977722	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv529388	chr2:148471340-148934846	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	esv3392562	chr2:148476961-148843061	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:148613000-148640800	Weak transcription	Lung	lung
2	chr2:148616800-148636200	Weak transcription	Small Intestine	intestine
3	chr2:148620000-148634000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr2:148620600-148634200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr2:148620800-148640000	Weak transcription	Adipose Nuclei	Adipose
6	chr2:148621400-148637000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr2:148621600-148641600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr2:148623600-148642600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr2:148625600-148634200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr2:148625600-148638200	Weak transcription	Primary T helper cells PMA-I stimulated	--
11	chr2:148625800-148634200	Weak transcription	HSMMtube	muscle
12	chr2:148625800-148638400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
13	chr2:148626000-148637000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
14	chr2:148626600-148639800	Weak transcription	Left Ventricle	heart
15	chr2:148628200-148634200	Weak transcription	H1 Cell Line	embryonic stem cell
16	chr2:148628200-148634200	Weak transcription	Psoas Muscle	Psoas
17	chr2:148628200-148636600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr2:148628200-148639800	Weak transcription	Right Atrium	heart
19	chr2:148628400-148634400	Weak transcription	Brain Angular Gyrus	brain
20	chr2:148631600-148636600	Weak transcription	Fetal Intestine Large	intestine
21	chr2:148631800-148634800	Weak transcription	Stomach Mucosa	stomach
22	chr2:148631800-148636800	Weak transcription	Fetal Intestine Small	intestine
23	chr2:148632000-148634600	Weak transcription	Liver	Liver
24	chr2:148632400-148634400	Weak transcription	Sigmoid Colon	Sigmoid Colon
25	chr2:148632400-148634400	Weak transcription	Skeletal Muscle Female	skeletal muscle
26	chr2:148633000-148634000	Enhancers	Pancreatic Islets	Pancreatic Islet
27	chr2:148633000-148634000	Enhancers	Rectal Smooth Muscle	rectum
28	chr2:148633000-148634200	Enhancers	iPS-20b Cell Line	embryonic stem cell
29	chr2:148633000-148636600	Enhancers	Colon Smooth Muscle	Colon
30	chr2:148633200-148634600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr2:148633200-148634600	Enhancers	Placenta Amnion	Placenta Amnion
32	chr2:148633400-148634200	Weak transcription	HUES6 Cell Line	embryonic stem cell
33	chr2:148633400-148635200	Enhancers	Breast Myoepithelial Primary Cells	Breast
34	chr2:148633400-148636200	Enhancers	HUES48 Cell Line	embryonic stem cell
35	chr2:148633600-148634600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr2:148633600-148634600	Enhancers	Skeletal Muscle Male	skeletal muscle
37	chr2:148633600-148634800	Enhancers	iPS-15b Cell Line	embryonic stem cell
38	chr2:148633600-148635000	Enhancers	HUES64 Cell Line	embryonic stem cell
39	chr2:148633600-148635600	Enhancers	Fetal Kidney	kidney
40	chr2:148633800-148634200	Weak transcription	Duodenum Smooth Muscle	Duodenum
41	chr2:148633800-148634400	Weak transcription	Duodenum Mucosa	Duodenum
42	chr2:148633800-148634400	Weak transcription	Right Ventricle	heart

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