Variant report

Variant	rs17115397
Chromosome Location	chr1:57681727-57681728
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:57676953..57678996-chr1:57679992..57682329,2	K562	blood:
2	chr1:57674738..57677987-chr1:57681554..57684288,3	K562	blood:

Extended variants
information (count: 106 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:104)

rs_ID	r²[population]
rs11206975	1.00[CEU][hapmap]
rs11206981	1.00[CEU][hapmap]
rs12032549	1.00[CEU][hapmap];0.86[CHB][hapmap];0.82[JPT][hapmap];1.00[EUR][1000 genomes]
rs12408256	1.00[CEU][hapmap]
rs12561986	1.00[EUR][1000 genomes]
rs12562392	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs12562394	1.00[CEU][hapmap];0.85[CHB][hapmap];0.82[JPT][hapmap];1.00[EUR][1000 genomes]
rs12562555	1.00[JPT][hapmap]
rs12562609	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap]
rs12562847	1.00[EUR][1000 genomes]
rs12562930	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs12563280	1.00[CEU][hapmap]
rs12563894	1.00[EUR][1000 genomes]
rs12564258	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs12564278	1.00[CEU][hapmap]
rs12564961	1.00[CEU][hapmap]
rs12566131	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs12566162	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs12566320	1.00[CEU][hapmap]
rs12567335	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12567531	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12567904	1.00[CEU][hapmap];0.86[JPT][hapmap];1.00[EUR][1000 genomes]
rs12567967	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12568148	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs12568862	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs12568928	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12568979	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12568992	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs12569224	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17115023	1.00[CEU][hapmap]
rs17115030	1.00[CEU][hapmap]
rs17115105	1.00[CEU][hapmap]
rs17115108	1.00[CEU][hapmap]
rs17115146	1.00[CEU][hapmap]
rs17115155	1.00[CEU][hapmap]
rs17115222	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs17115441	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17115445	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17115580	1.00[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap];1.00[EUR][1000 genomes]
rs17115587	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs17420013	1.00[CEU][hapmap]
rs17420216	1.00[CEU][hapmap]
rs17421219	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap]
rs17421839	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs17422039	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs17455073	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap]
rs17455469	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs17455616	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs17455728	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs17455840	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes]
rs197599	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs197606	1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs197623	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs41286864	0.86[EUR][1000 genomes]
rs59762173	1.00[EUR][1000 genomes]
rs61765266	0.86[EUR][1000 genomes]
rs61765267	0.86[EUR][1000 genomes]
rs61765271	0.86[EUR][1000 genomes]
rs61765330	0.86[EUR][1000 genomes]
rs61765331	0.86[EUR][1000 genomes]
rs61765332	0.86[EUR][1000 genomes]
rs61765561	1.00[EUR][1000 genomes]
rs61765563	1.00[EUR][1000 genomes]
rs61765578	1.00[EUR][1000 genomes]
rs61765580	1.00[EUR][1000 genomes]
rs61765581	1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs61765586	1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs61765589	1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs61765590	1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs61765591	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61765592	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61765593	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61765594	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61765595	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61765623	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61765624	0.88[ASN][1000 genomes]
rs61767363	1.00[EUR][1000 genomes]
rs61767364	1.00[EUR][1000 genomes]
rs61767365	1.00[EUR][1000 genomes]
rs61767367	1.00[EUR][1000 genomes]
rs61767368	1.00[EUR][1000 genomes]
rs61767384	1.00[EUR][1000 genomes]
rs61767385	1.00[EUR][1000 genomes]
rs61767386	1.00[EUR][1000 genomes]
rs61767387	1.00[EUR][1000 genomes]
rs61767388	1.00[EUR][1000 genomes]
rs61767389	1.00[EUR][1000 genomes]
rs61767390	1.00[EUR][1000 genomes]
rs61767392	1.00[EUR][1000 genomes]
rs61767393	1.00[EUR][1000 genomes]
rs61767394	1.00[EUR][1000 genomes]
rs61767395	1.00[EUR][1000 genomes]
rs61767396	1.00[EUR][1000 genomes]
rs61767401	1.00[EUR][1000 genomes]
rs61767411	1.00[EUR][1000 genomes]
rs61767412	1.00[EUR][1000 genomes]
rs61767514	1.00[EUR][1000 genomes]
rs61767515	1.00[EUR][1000 genomes]
rs61767516	1.00[EUR][1000 genomes]
rs61767517	1.00[EUR][1000 genomes]
rs6587766	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6695086	1.00[EUR][1000 genomes]
rs6697173	1.00[CEU][hapmap]
rs728719	1.00[CEU][hapmap]

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	nsv461628	chr1:57463326-57816489	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv546305	chr1:57463326-57816489	Weak transcription Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:57675600-57692600	Weak transcription	Fetal Intestine Large	intestine
2	chr1:57676000-57689800	Weak transcription	Fetal Intestine Small	intestine
3	chr1:57678600-57684600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr1:57679200-57695000	Weak transcription	Fetal Brain Female	brain
5	chr1:57680600-57681800	Enhancers	ES-I3 Cell Line	embryonic stem cell
6	chr1:57680600-57681800	Enhancers	HUES6 Cell Line	embryonic stem cell
7	chr1:57680600-57682000	Enhancers	iPS-18 Cell Line	embryonic stem cell
8	chr1:57680600-57682200	Enhancers	HUES64 Cell Line	embryonic stem cell
9	chr1:57680800-57681800	Enhancers	HUES48 Cell Line	embryonic stem cell
10	chr1:57680800-57682000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr1:57680800-57682600	Enhancers	Cortex derived primary cultured neurospheres	brain
12	chr1:57680800-57684000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr1:57680800-57684800	Enhancers	Fetal Heart	heart
14	chr1:57681000-57681800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr1:57681000-57681800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr1:57681200-57682200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr1:57681200-57682200	Weak transcription	Stomach Smooth Muscle	stomach
18	chr1:57681400-57682000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr1:57681600-57681800	Active TSS	iPS-20b Cell Line	embryonic stem cell
20	chr1:57681600-57682000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr1:57681600-57682000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links