Variant report

Variant	rs1179460
Chromosome Location	chr12:120886908-120886909
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:2)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:2 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr12:120886815-120887210	SK-N-MC	brain:	n/a	n/a
2	POLR2A	chr12:120886833-120886910	K562	blood:	n/a	n/a

No data

(count:6 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr12:120793461..120795672-chr12:120885459..120888089,2	K562	blood:
2	chr12:120728284..120732232-chr12:120880260..120886911,13	MCF-7	breast:
3	chr12:120728333..120729932-chr12:120886056..120888165,2	K562	blood:
4	chr12:120886085..120888249-chr12:120933433..120935397,2	K562	blood:
5	chr12:120728080..120732034-chr12:120882797..120888425,5	K562	blood:
6	chr12:120729043..120731764-chr12:120885263..120888215,2	MCF-7	breast:

No data

Variant related genes	Relation type
TRIAP1	TF binding region
ENSG00000200795	Chromatin interaction
ENSG00000088986	Chromatin interaction
ENSG00000248008	Chromatin interaction
ENSG00000202538	Chromatin interaction

Extended variants
information (count: 92 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:92)

rs_ID	r²[population]
rs1037611	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10774550	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10774557	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10774558	0.94[CHB][hapmap];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10774559	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10849756	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10849760	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10849762	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10849764	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11065144	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11065147	0.88[CHB][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11065157	0.94[CHB][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11065158	0.82[CHB][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11065163	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11065164	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1151845	0.94[CHB][hapmap];0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1151846	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1167688	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1167696	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1167699	0.94[CHB][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1167701	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1167702	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1167704	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1167705	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1167706	0.94[CHB][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1167713	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1167714	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1167715	0.94[CHB][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1167716	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1167719	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1167720	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1167721	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1167722	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1167723	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1167724	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1179462	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1179463	0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1179464	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1179465	0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12227470	0.84[EUR][1000 genomes]
rs12369178	0.94[CHB][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12370706	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1592361	0.94[CHB][hapmap];0.85[EUR][1000 genomes]
rs1671762	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1671765	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1671766	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1671769	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1710130	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1710132	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1710142	0.94[CHB][hapmap];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1710143	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1710144	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1710146	0.94[CHB][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1794751	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1794752	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2076022	0.83[CHB][hapmap]
rs2235223	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2292680	0.94[CHB][hapmap];0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2301456	0.94[CHB][hapmap];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2393589	0.81[AMR][1000 genomes]
rs2673623	0.81[ASN][1000 genomes]
rs2673624	0.84[EUR][1000 genomes]
rs2673625	0.94[CHB][hapmap];0.84[EUR][1000 genomes]
rs28390349	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3088345	0.94[CHB][hapmap];0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35801170	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3847971	0.94[CHB][hapmap];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4767898	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4767899	0.94[CHB][hapmap];0.83[JPT][hapmap]
rs526176	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs542407	0.94[CHB][hapmap]
rs606443	0.94[CHB][hapmap];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs667913	0.94[CHB][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs671566	0.94[CHB][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs680795	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7135855	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7307666	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs787818	0.94[CHB][hapmap];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs787821	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs787822	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs787823	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs787826	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs787828	0.87[CHB][hapmap];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs787830	0.94[CHB][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs787831	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs787833	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs787834	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7963890	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7972060	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs812560	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs8903	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9669663	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1179460	RNF10	Cis_1M	lymphoblastoid	RTeQTL
rs1179460	POP5	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:120884800-120893000	Weak transcription	Aorta	Aorta
2	chr12:120884800-120893200	Weak transcription	Small Intestine	intestine
3	chr12:120885000-120887400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
4	chr12:120885000-120893800	Weak transcription	Ovary	ovary
5	chr12:120885400-120887000	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr12:120885400-120887000	Weak transcription	Brain Inferior Temporal Lobe	brain
7	chr12:120885400-120887000	Weak transcription	Gastric	stomach
8	chr12:120885400-120887000	Weak transcription	Rectal Smooth Muscle	rectum
9	chr12:120885400-120887000	Weak transcription	Thymus	Thymus
10	chr12:120885400-120887800	Weak transcription	Fetal Kidney	kidney
11	chr12:120885400-120892200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr12:120885400-120892200	Weak transcription	Left Ventricle	heart
13	chr12:120885400-120892600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr12:120885400-120893200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr12:120885400-120893200	Weak transcription	Colonic Mucosa	Colon
16	chr12:120885400-120893800	Weak transcription	Esophagus	oesophagus
17	chr12:120885400-120893800	Weak transcription	Lung	lung
18	chr12:120885400-120894000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr12:120885400-120895600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr12:120885400-120904400	Strong transcription	Fetal Muscle Trunk	muscle
21	chr12:120885400-120906000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
22	chr12:120885400-120906000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
23	chr12:120885600-120887000	Weak transcription	HUES6 Cell Line	embryonic stem cell
24	chr12:120885600-120887000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr12:120885600-120887000	Weak transcription	Primary monocytes fromperipheralblood	blood
26	chr12:120885600-120887000	Weak transcription	NH-A	brain
27	chr12:120885600-120887200	Weak transcription	HUES64 Cell Line	embryonic stem cell
28	chr12:120885600-120888000	Weak transcription	Osteobl	bone
29	chr12:120885600-120890000	Weak transcription	Primary neutrophils fromperipheralblood	blood
30	chr12:120885600-120890000	Weak transcription	HMEC	breast
31	chr12:120885600-120890400	Weak transcription	Fetal Lung	lung
32	chr12:120885600-120892600	Weak transcription	Adipose Nuclei	Adipose
33	chr12:120885600-120893800	Weak transcription	HSMMtube	muscle
34	chr12:120885600-120894000	Weak transcription	Brain Anterior Caudate	brain
35	chr12:120885600-120894400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
36	chr12:120885600-120896400	Weak transcription	Pancreatic Islets	Pancreatic Islet
37	chr12:120885600-120904000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr12:120885600-120904000	Strong transcription	Fetal Stomach	stomach
39	chr12:120885800-120887000	Weak transcription	H9 Cell Line	embryonic stem cell
40	chr12:120885800-120887000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr12:120885800-120887000	Weak transcription	Muscle Satellite Cultured Cells	--
42	chr12:120885800-120887000	Weak transcription	Spleen	Spleen
43	chr12:120885800-120887000	Weak transcription	A549	lung
44	chr12:120885800-120887000	Weak transcription	HSMM	muscle
45	chr12:120885800-120887600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
46	chr12:120885800-120887600	Enhancers	Pancreas	Pancrea
47	chr12:120885800-120887600	Weak transcription	NHEK	skin
48	chr12:120885800-120887800	Weak transcription	Sigmoid Colon	Sigmoid Colon
49	chr12:120885800-120888000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
50	chr12:120885800-120888000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links