Variant report

Variant	rs9824176
Chromosome Location	chr3:142323771-142323772
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:142317992..142321770-chr3:142321788..142324487,4	K562	blood:
2	chr3:142313049..142317204-chr3:142317936..142324155,9	MCF-7	breast:
3	chr3:142322302..142325692-chr3:142327995..142330616,3	K562	blood:

Variant related genes	Relation type
ENSG00000120756	Chromatin interaction

Extended variants
information (count: 89 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:83)

rs_ID	r²[population]
rs10935465	0.80[EUR][1000 genomes]
rs1129393	0.80[EUR][1000 genomes]
rs11715610	0.83[ASN][1000 genomes]
rs12695767	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs12695768	0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs13058771	0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs13065075	0.80[EUR][1000 genomes]
rs13069113	0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs13069307	0.81[EUR][1000 genomes]
rs13079246	0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs13080785	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs13093869	0.87[EUR][1000 genomes]
rs13100985	0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs1357529	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1357530	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16852486	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs17623267	0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs1916639	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1983434	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1983435	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2012010	0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs2030613	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2049325	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2049326	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2140432	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2177396	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2227928	0.80[EUR][1000 genomes]
rs2227930	0.80[EUR][1000 genomes]
rs2354175	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2354860	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2883380	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs3736560	0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs3736561	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs4413348	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4683688	0.84[ASN][1000 genomes]
rs4683689	0.84[ASN][1000 genomes]
rs4683690	0.84[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs4683691	0.81[ASN][1000 genomes]
rs6414350	0.82[EUR][1000 genomes]
rs6440088	0.80[EUR][1000 genomes]
rs6440089	0.80[EUR][1000 genomes]
rs6440090	0.85[EUR][1000 genomes]
rs6440091	0.83[EUR][1000 genomes]
rs6440092	0.85[EUR][1000 genomes]
rs6440093	0.86[EUR][1000 genomes]
rs6440094	0.86[EUR][1000 genomes]
rs6440098	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6440099	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6440102	0.81[ASN][1000 genomes]
rs6768093	0.81[EUR][1000 genomes]
rs6770155	0.85[EUR][1000 genomes]
rs6775813	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6783203	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6784089	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6784361	0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs6785894	0.82[ASN][1000 genomes]
rs6792259	0.81[EUR][1000 genomes]
rs6793735	0.82[ASN][1000 genomes]
rs6798232	0.80[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs6799752	0.85[EUR][1000 genomes]
rs6802734	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6802774	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6808205	0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs6808302	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs7428496	0.86[EUR][1000 genomes]
rs7430429	0.81[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs7609842	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7610557	0.85[EUR][1000 genomes]
rs7615316	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7631313	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7635146	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7646880	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7648354	0.81[ASN][1000 genomes]
rs7651542	0.83[EUR][1000 genomes]
rs940211	0.84[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs940212	0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs9824893	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9825207	0.81[EUR][1000 genomes]
rs9832606	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs9866958	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9869842	0.80[EUR][1000 genomes]
rs9879995	0.82[EUR][1000 genomes]
rs9882763	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877556	chr3:141898980-142331360	Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv877558	chr3:142123841-142331360	Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
3	nsv877559	chr3:142132749-142331360	Active TSS Enhancers Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
4	nsv877560	chr3:142132749-142362179	Strong transcription ZNF genes & repeats Weak transcription Active TSS Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
5	nsv877561	chr3:142152925-142331360	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
6	nsv932989	chr3:142204208-142423305	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:142315800-142324400	Weak transcription	Lung	lung
2	chr3:142316200-142331000	Weak transcription	Small Intestine	intestine
3	chr3:142317000-142327600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr3:142317200-142337600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr3:142317400-142327400	Weak transcription	K562	blood
6	chr3:142317400-142337800	Weak transcription	HepG2	liver
7	chr3:142319400-142330000	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr3:142319600-142324200	Weak transcription	Pancreas	Pancrea
9	chr3:142320400-142324600	Enhancers	Fetal Intestine Large	intestine
10	chr3:142321200-142325200	Enhancers	Fetal Intestine Small	intestine
11	chr3:142321800-142333200	Weak transcription	Colonic Mucosa	Colon
12	chr3:142322200-142323800	Weak transcription	Stomach Mucosa	stomach
13	chr3:142322800-142323800	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr3:142322800-142324600	Enhancers	Rectal Mucosa Donor 31	rectum
15	chr3:142323400-142327000	Weak transcription	Duodenum Mucosa	Duodenum

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