Variant report

Variant	rs2012648
Chromosome Location	chr7:13221150-13221151
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10046470	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10046588	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1008992	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10226477	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10246813	0.87[ASN][1000 genomes]
rs10248755	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs10264187	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10269259	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10488253	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs10950442	0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs10950443	0.99[ASN][1000 genomes]
rs12538495	0.81[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs12540940	0.81[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs12540941	0.81[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs12666139	0.87[ASN][1000 genomes]
rs12666706	0.97[ASN][1000 genomes]
rs12670246	0.92[ASN][1000 genomes]
rs12674089	1.00[ASN][1000 genomes]
rs12699454	0.87[ASN][1000 genomes]
rs13233335	0.87[ASN][1000 genomes]
rs17166877	0.96[ASN][1000 genomes]
rs1860269	0.91[ASN][1000 genomes]
rs2041234	0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2357202	0.98[ASN][1000 genomes]
rs2884119	0.87[ASN][1000 genomes]
rs2884120	0.87[ASN][1000 genomes]
rs35489469	0.90[ASN][1000 genomes]
rs35806796	1.00[ASN][1000 genomes]
rs4255030	0.85[ASN][1000 genomes]
rs4721187	0.84[ASN][1000 genomes]
rs66927161	0.97[ASN][1000 genomes]
rs67645508	0.93[ASN][1000 genomes]
rs6948050	0.96[ASN][1000 genomes]
rs6948643	0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs6964343	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6964875	0.84[CHB][hapmap]
rs6973386	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap]
rs71538818	0.97[ASN][1000 genomes]
rs718814	0.87[ASN][1000 genomes]
rs725435	0.89[ASN][1000 genomes]
rs758400	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7776609	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7778141	0.87[ASN][1000 genomes]
rs7779878	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7784835	0.85[ASN][1000 genomes]
rs7785396	0.85[ASN][1000 genomes]
rs7785416	0.87[ASN][1000 genomes]
rs7790770	0.81[CHB][hapmap]
rs7796940	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7799843	0.87[ASN][1000 genomes]
rs7800770	0.85[ASN][1000 genomes]
rs7804111	0.87[ASN][1000 genomes]
rs7804393	0.87[ASN][1000 genomes]
rs917491	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs9632583	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9638688	0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:20 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932020	chr7:12676890-13239551	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv868830	chr7:12712753-13517417	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
3	nsv1019173	chr7:13063854-13585360	Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv538737	chr7:13063854-13585360	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv1034496	chr7:13102902-13275542	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv1030795	chr7:13111069-13242350	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv1019238	chr7:13129616-13248483	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	esv2764039	chr7:13130069-13224373	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv1020790	chr7:13130069-13365778	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
10	nsv887646	chr7:13137142-13237390	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
11	nsv1015724	chr7:13143412-13242350	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
12	nsv887647	chr7:13146222-13262586	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
13	nsv1020652	chr7:13167453-13258217	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
14	nsv887648	chr7:13190950-13268915	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
15	nsv1018400	chr7:13196288-13308474	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
16	nsv1025314	chr7:13211195-13256780	Weak transcription Enhancers Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
17	nsv606249	chr7:13211263-13247686	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
18	nsv887649	chr7:13215378-13262586	Weak transcription Enhancers Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
19	nsv887650	chr7:13220948-13247686	Weak transcription Enhancers Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
20	nsv606250	chr7:13220948-13254927	Weak transcription Enhancers Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:13218600-13221600	Enhancers	Cortex derived primary cultured neurospheres	brain
2	chr7:13220000-13221200	Weak transcription	Fetal Kidney	kidney
3	chr7:13220000-13221400	Enhancers	Breast Myoepithelial Primary Cells	Breast
4	chr7:13220000-13223600	Weak transcription	HepG2	liver
5	chr7:13220600-13221200	Enhancers	Fetal Muscle Leg	muscle
6	chr7:13220800-13221200	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr7:13220800-13221200	Enhancers	Fetal Brain Female	brain
8	chr7:13220800-13221200	Flanking Active TSS	A549	lung
9	chr7:13220800-13221400	Enhancers	Brain Substantia Nigra	brain
10	chr7:13221000-13221400	Enhancers	Fetal Stomach	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links