Variant report

Variant	rs60039058
Chromosome Location	chr2:168336517-168336518
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 77 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs1025430	1.00[EUR][1000 genomes]
rs1036130	1.00[EUR][1000 genomes]
rs1147152	1.00[EUR][1000 genomes]
rs1147153	1.00[EUR][1000 genomes]
rs1147156	1.00[EUR][1000 genomes]
rs11891312	1.00[EUR][1000 genomes]
rs1226903	1.00[EUR][1000 genomes]
rs1227108	1.00[EUR][1000 genomes]
rs1227109	1.00[EUR][1000 genomes]
rs1227110	1.00[EUR][1000 genomes]
rs1227112	1.00[EUR][1000 genomes]
rs1227118	1.00[EUR][1000 genomes]
rs1227119	1.00[EUR][1000 genomes]
rs1227121	1.00[EUR][1000 genomes]
rs1227124	1.00[EUR][1000 genomes]
rs1227125	1.00[EUR][1000 genomes]
rs1227126	1.00[EUR][1000 genomes]
rs1228654	1.00[EUR][1000 genomes]
rs1228655	1.00[EUR][1000 genomes]
rs1236835	1.00[EUR][1000 genomes]
rs1237507	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1237906	1.00[EUR][1000 genomes]
rs1238297	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1238300	1.00[EUR][1000 genomes]
rs1239011	1.00[EUR][1000 genomes]
rs1239012	1.00[EUR][1000 genomes]
rs13413032	1.00[EUR][1000 genomes]
rs1431905	1.00[EUR][1000 genomes]
rs1431910	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1523880	1.00[EUR][1000 genomes]
rs1625491	1.00[EUR][1000 genomes]
rs1653386	1.00[EUR][1000 genomes]
rs1653403	1.00[EUR][1000 genomes]
rs1653406	1.00[EUR][1000 genomes]
rs16853638	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16853656	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1730672	1.00[EUR][1000 genomes]
rs1730685	1.00[EUR][1000 genomes]
rs1730701	1.00[EUR][1000 genomes]
rs1730702	1.00[EUR][1000 genomes]
rs1730709	1.00[EUR][1000 genomes]
rs1730724	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1964366	1.00[EUR][1000 genomes]
rs2436053	1.00[EUR][1000 genomes]
rs2464040	1.00[EUR][1000 genomes]
rs2617377	1.00[EUR][1000 genomes]
rs2617384	1.00[EUR][1000 genomes]
rs28439206	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28699542	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58329901	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58381721	1.00[EUR][1000 genomes]
rs58529068	1.00[EUR][1000 genomes]
rs6432999	1.00[EUR][1000 genomes]
rs6712894	1.00[EUR][1000 genomes]
rs6719316	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6725468	1.00[EUR][1000 genomes]
rs6729236	1.00[EUR][1000 genomes]
rs6740851	1.00[EUR][1000 genomes]
rs6750622	1.00[EUR][1000 genomes]
rs73022071	1.00[EUR][1000 genomes]
rs73022078	1.00[EUR][1000 genomes]
rs73022085	1.00[EUR][1000 genomes]
rs73022089	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73023884	1.00[EUR][1000 genomes]
rs73024003	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73024049	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73024058	1.00[EUR][1000 genomes]
rs73972301	1.00[EUR][1000 genomes]
rs7557157	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7567053	1.00[EUR][1000 genomes]
rs7567252	1.00[EUR][1000 genomes]
rs7606712	1.00[EUR][1000 genomes]
rs979974	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs991159	1.00[EUR][1000 genomes]
rs994428	1.00[EUR][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	nsv491872	chr2:168220323-168737986	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	esv3388045	chr2:168289403-168424317	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:168328600-168336800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr2:168332600-168336600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr2:168332600-168337000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr2:168332800-168337000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr2:168332800-168337400	Weak transcription	Brain Hippocampus Middle	brain
6	chr2:168333000-168337200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr2:168333200-168337000	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr2:168334000-168336600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr2:168335600-168336600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr2:168335600-168336800	Enhancers	HUES48 Cell Line	embryonic stem cell
11	chr2:168335600-168336800	Enhancers	HUES6 Cell Line	embryonic stem cell
12	chr2:168336000-168338400	Enhancers	HUES64 Cell Line	embryonic stem cell
13	chr2:168336000-168338400	Enhancers	iPS-20b Cell Line	embryonic stem cell
14	chr2:168336000-168338600	Enhancers	iPS-15b Cell Line	embryonic stem cell
15	chr2:168336200-168337000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
16	chr2:168336200-168337800	Enhancers	ES-I3 Cell Line	embryonic stem cell
17	chr2:168336200-168338200	Enhancers	H1 Cell Line	embryonic stem cell
18	chr2:168336200-168338200	Enhancers	H9 Cell Line	embryonic stem cell
19	chr2:168336200-168338800	Enhancers	iPS-18 Cell Line	embryonic stem cell
20	chr2:168336400-168337200	Enhancers	Pancreas	Pancrea
21	chr2:168336400-168337400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr2:168336400-168337600	Enhancers	ES-WA7 Cell Line	embryonic stem cell
23	chr2:168336400-168337600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links