Variant report

Variant	rs17406202
Chromosome Location	chr2:77234385-77234386
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 102 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:98)

rs_ID	r²[population]
rs10172981	0.90[EUR][1000 genomes]
rs10208087	0.93[EUR][1000 genomes]
rs10520174	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap]
rs10520177	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10520179	0.83[CEU][hapmap]
rs1075716	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1077111	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13388459	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13413951	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1345137	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1446696	0.92[CEU][hapmap]
rs1446708	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs1446721	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17013567	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs17013635	0.91[CEU][hapmap];0.91[EUR][1000 genomes]
rs17333383	1.00[YRI][hapmap]
rs17333578	0.83[AFR][1000 genomes]
rs17333696	0.86[CEU][hapmap];1.00[CHB][hapmap];0.88[ASN][1000 genomes]
rs17333850	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs17333884	0.85[CEU][hapmap]
rs17333926	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17334205	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17334240	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17334254	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17334261	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17334506	0.91[CEU][hapmap];1.00[YRI][hapmap]
rs17334527	0.91[CEU][hapmap];0.89[CHB][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17405288	1.00[YRI][hapmap]
rs17405711	0.85[CEU][hapmap]
rs17405724	0.86[CEU][hapmap]
rs17405864	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17405905	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17405953	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17405981	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17406009	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs17406023	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17406084	0.92[EUR][1000 genomes]
rs17406091	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17406146	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17406374	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17406395	0.92[CEU][hapmap];1.00[YRI][hapmap]
rs17406416	0.92[CEU][hapmap];1.00[YRI][hapmap]
rs17406465	0.83[CEU][hapmap]
rs1929454	1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs1929455	1.00[YRI][hapmap]
rs1929457	1.00[YRI][hapmap]
rs1960005	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2077823	1.00[CEU][hapmap];0.89[CHB][hapmap];0.82[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34007251	0.88[EUR][1000 genomes]
rs4396752	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4401235	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4447628	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4491748	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4637153	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4853285	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap]
rs55800138	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs55864802	0.90[EUR][1000 genomes]
rs56055201	0.85[EUR][1000 genomes]
rs62170208	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62170209	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs62170210	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62170337	0.88[ASN][1000 genomes]
rs62170864	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62170865	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62170866	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62170872	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs62170895	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs62170896	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs62170899	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs62170910	0.86[EUR][1000 genomes]
rs62170911	0.86[EUR][1000 genomes]
rs62170913	0.82[EUR][1000 genomes]
rs62170914	0.86[EUR][1000 genomes]
rs62170916	0.86[EUR][1000 genomes]
rs62170918	0.84[EUR][1000 genomes]
rs62171961	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs62171964	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62171994	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62171995	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62171996	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62171997	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs66769122	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6715191	1.00[YRI][hapmap]
rs6715833	0.84[CHB][hapmap]
rs6742824	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72823135	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72823137	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72823174	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72823176	0.95[EUR][1000 genomes]
rs72823182	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72823183	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72823195	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72823196	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72823197	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72825338	0.83[EUR][1000 genomes]
rs7425906	1.00[YRI][hapmap]
rs956657	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs985751	1.00[YRI][hapmap]

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	nsv834266	chr2:77120236-77287504	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv949670	chr2:77125218-77712607	Weak transcription Enhancers Bivalent Enhancer Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv519950	chr2:77213103-77256291	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv997284	chr2:77233426-77303198	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:77231600-77234600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
2	chr2:77231600-77234800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
3	chr2:77231600-77235800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr2:77232000-77245600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr2:77232600-77238200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr2:77232800-77238000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr2:77233600-77235200	Enhancers	ES-I3 Cell Line	embryonic stem cell
8	chr2:77233600-77237200	Enhancers	HUES64 Cell Line	embryonic stem cell
9	chr2:77233800-77234600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr2:77233800-77234800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
11	chr2:77233800-77235800	Enhancers	HUES6 Cell Line	embryonic stem cell
12	chr2:77233800-77236000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr2:77233800-77236800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr2:77233800-77237000	Enhancers	Cortex derived primary cultured neurospheres	brain
15	chr2:77233800-77237000	Enhancers	HUVEC	blood vessel
16	chr2:77234000-77234400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
17	chr2:77234000-77234800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr2:77234000-77235000	Enhancers	Breast Myoepithelial Primary Cells	Breast
19	chr2:77234000-77235600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr2:77234000-77235800	Weak transcription	H1 Cell Line	embryonic stem cell
21	chr2:77234000-77237600	Enhancers	HUES48 Cell Line	embryonic stem cell
22	chr2:77234200-77234400	Enhancers	Fetal Brain Male	brain
23	chr2:77234200-77239000	Weak transcription	H9 Cell Line	embryonic stem cell

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