Variant report

Variant	rs28825121
Chromosome Location	chr7:96755718-96755719
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:96755308..96757076-chr7:96769182..96771029,2	K562	blood:
2	chr7:96745279..96751948-chr7:96754118..96758350,11	K562	blood:
3	chr7:96752164..96755225-chr7:96755419..96757960,4	K562	blood:

Variant related genes	Relation type
ENSG00000196636	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs1014341	0.84[ASN][1000 genomes]
rs10229181	0.81[ASN][1000 genomes]
rs10231916	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10235199	0.81[ASN][1000 genomes]
rs10246622	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10252102	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10260298	0.83[ASN][1000 genomes]
rs10275135	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10279603	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11972232	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11980904	0.81[ASN][1000 genomes]
rs1199289	0.81[ASN][1000 genomes]
rs1199290	0.84[ASN][1000 genomes]
rs1199291	0.83[ASN][1000 genomes]
rs1199292	0.84[ASN][1000 genomes]
rs12056091	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12669915	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12671362	0.83[ASN][1000 genomes]
rs13475	0.81[ASN][1000 genomes]
rs1534370	0.83[ASN][1000 genomes]
rs1880732	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1917941	0.81[ASN][1000 genomes]
rs2140954	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28646010	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4729330	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6465571	0.83[ASN][1000 genomes]
rs6943457	0.83[ASN][1000 genomes]
rs6958059	0.85[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6961807	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6963921	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6973369	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73233819	0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7787376	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7794886	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7803945	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7810432	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7811797	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9656043	0.81[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	nsv1019725	chr7:96749866-96850819	Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv539029	chr7:96749866-96850819	ZNF genes & repeats Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:96747400-96759800	Weak transcription	Spleen	Spleen
2	chr7:96747600-96759000	Weak transcription	Esophagus	oesophagus
3	chr7:96747600-96768200	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr7:96747800-96768200	Weak transcription	Aorta	Aorta
5	chr7:96748000-96759000	Weak transcription	Left Ventricle	heart
6	chr7:96748200-96759800	Weak transcription	Fetal Intestine Small	intestine
7	chr7:96748400-96767200	Weak transcription	Fetal Stomach	stomach
8	chr7:96748400-96768200	Weak transcription	Right Ventricle	heart
9	chr7:96748400-96768400	Weak transcription	Psoas Muscle	Psoas
10	chr7:96748600-96755800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr7:96748600-96756000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr7:96748600-96759200	Weak transcription	HMEC	breast
13	chr7:96749000-96768200	Weak transcription	Right Atrium	heart
14	chr7:96749200-96755800	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr7:96749200-96759800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
16	chr7:96749200-96768000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
17	chr7:96749400-96768000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
18	chr7:96749400-96768200	Weak transcription	Primary T cells from cord blood	blood
19	chr7:96752400-96766000	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr7:96753600-96759000	Weak transcription	Primary T cells fromperipheralblood	blood
21	chr7:96755000-96756600	Enhancers	iPS-15b Cell Line	embryonic stem cell
22	chr7:96755000-96766800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr7:96755000-96768000	Weak transcription	Adipose Nuclei	Adipose
24	chr7:96755200-96755800	Enhancers	iPS-18 Cell Line	embryonic stem cell
25	chr7:96755200-96755800	Flanking Active TSS	K562	blood
26	chr7:96755200-96756400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
27	chr7:96755400-96756000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr7:96755400-96756600	Enhancers	H1 Cell Line	embryonic stem cell
29	chr7:96755400-96756600	Enhancers	iPS-20b Cell Line	embryonic stem cell
30	chr7:96755400-96756600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
31	chr7:96755400-96756600	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
32	chr7:96755400-96756600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr7:96755600-96755800	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
34	chr7:96755600-96756000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr7:96755600-96756200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr7:96755600-96756200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr7:96755600-96756400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
38	chr7:96755600-96756600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell

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