Variant report

Variant	rs17777379
Chromosome Location	chr7:104491000-104491001
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10216243	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.91[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs10226456	0.95[CHB][hapmap];0.86[JPT][hapmap];0.85[EUR][1000 genomes]
rs10226802	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10227564	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10235696	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10236552	0.85[EUR][1000 genomes]
rs10237433	0.86[CHB][hapmap]
rs10238498	0.85[EUR][1000 genomes]
rs10243336	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10243529	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10247246	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10250365	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10253341	0.90[CHB][hapmap]
rs10257360	0.85[EUR][1000 genomes]
rs10259925	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[YRI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10262655	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10264318	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10272668	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10274240	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.85[EUR][1000 genomes]
rs10280365	0.95[CHB][hapmap];0.85[JPT][hapmap];0.85[EUR][1000 genomes]
rs10281485	0.85[EUR][1000 genomes]
rs10953454	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10953455	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12535201	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12670275	0.85[EUR][1000 genomes]
rs12672211	0.86[CHB][hapmap]
rs12705281	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12705282	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12705285	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13230447	1.00[CEU][hapmap]
rs13233998	0.86[EUR][1000 genomes]
rs1468813	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17777439	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2285533	0.91[CHB][hapmap];0.81[JPT][hapmap];0.85[EUR][1000 genomes]
rs2465065	0.80[CHB][hapmap]
rs28546781	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28587189	0.85[EUR][1000 genomes]
rs34083033	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34171467	0.85[EUR][1000 genomes]
rs34439336	1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34508498	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35146170	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35324592	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35337480	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35756879	0.85[EUR][1000 genomes]
rs35894637	0.85[ASN][1000 genomes]
rs35988800	0.85[EUR][1000 genomes]
rs4351347	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6949139	0.86[CHB][hapmap]
rs6963979	0.90[CHB][hapmap];0.84[ASN][1000 genomes]
rs6968540	0.82[ASN][1000 genomes]
rs71562620	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs71562621	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs71562626	0.97[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7781864	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][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	nsv5887	chr7:104401250-104491604	Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv831086	chr7:104422503-104596766	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:104476400-104503000	Weak transcription	Duodenum Mucosa	Duodenum
2	chr7:104481600-104514400	Weak transcription	Fetal Kidney	kidney
3	chr7:104483600-104493000	Weak transcription	Pancreas	Pancrea
4	chr7:104486200-104492800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr7:104486600-104492600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr7:104486800-104491000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr7:104487800-104491400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr7:104489000-104492400	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr7:104489000-104493400	Weak transcription	Fetal Intestine Large	intestine
10	chr7:104489000-104493800	Weak transcription	Fetal Brain Male	brain
11	chr7:104489000-104494400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr7:104489200-104492400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr7:104489400-104492200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr7:104490000-104492200	Weak transcription	Fetal Intestine Small	intestine
15	chr7:104490800-104491800	Enhancers	GM12878-XiMat	blood
16	chr7:104491000-104492400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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