Variant report

Variant	rs12684076
Chromosome Location	chr9:95513304-95513305
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:95506780..95509638-chr9:95511921..95514054,2	K562	blood:
2	chr9:95510041..95513567-chr9:95525566..95528932,4	K562	blood:
3	chr9:95504668..95516688-chr9:95523327..95528935,18	MCF-7	breast:
4	chr9:94894055..94896272-chr9:95510908..95513385,2	K562	blood:

Variant related genes	Relation type
ENSG00000234537	Chromatin interaction
ENSG00000185963	Chromatin interaction

Extended variants
information (count: 69 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10820998	0.83[EUR][1000 genomes]
rs10821001	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10821003	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10821004	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10821005	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10821011	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10821014	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10992390	0.84[EUR][1000 genomes]
rs10992392	0.84[EUR][1000 genomes]
rs10992396	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10992407	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10992408	0.91[EUR][1000 genomes]
rs10992409	0.91[EUR][1000 genomes]
rs10992412	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10992414	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10992416	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10992417	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10992420	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10992422	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10992423	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10992426	0.83[ASN][1000 genomes]
rs10992433	0.91[ASN][1000 genomes]
rs10992437	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10992448	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10992453	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10992460	0.89[AFR][1000 genomes];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10992461	0.82[AFR][1000 genomes];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10992474	0.83[EUR][1000 genomes]
rs10992476	0.84[EUR][1000 genomes]
rs11533010	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12057034	0.84[EUR][1000 genomes]
rs12236013	0.84[EUR][1000 genomes]
rs12236754	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12236788	0.89[ASN][1000 genomes]
rs12238691	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12683839	0.82[ASN][1000 genomes]
rs12684587	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12685358	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1407944	0.85[ASN][1000 genomes]
rs16908555	0.84[EUR][1000 genomes]
rs16908560	0.84[EUR][1000 genomes]
rs17366488	0.84[EUR][1000 genomes]
rs1853429	0.84[EUR][1000 genomes]
rs2181584	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2398780	0.84[EUR][1000 genomes]
rs3739605	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4141966	0.84[EUR][1000 genomes]
rs56311406	0.89[AFR][1000 genomes];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs57737182	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs58952648	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs60498616	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs67601697	0.81[EUR][1000 genomes]
rs7031163	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs753804	0.84[AFR][1000 genomes];0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs754600	0.87[EUR][1000 genomes]
rs7850075	0.86[EUR][1000 genomes]
rs7850871	0.89[ASN][1000 genomes]
rs7851947	0.85[ASN][1000 genomes]
rs7853617	0.82[EUR][1000 genomes]
rs7855203	0.81[EUR][1000 genomes]
rs7856147	0.82[EUR][1000 genomes]
rs7857105	0.84[EUR][1000 genomes]
rs7857502	0.84[EUR][1000 genomes]
rs7859967	0.82[EUR][1000 genomes]
rs7860628	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7863741	0.93[EUR][1000 genomes]
rs7869603	0.84[AFR][1000 genomes];0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7875050	0.82[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv430081	chr9:95502571-95568110	Enhancers Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:105 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:95502400-95516400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr9:95503400-95518000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr9:95503600-95514400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr9:95503600-95514400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
5	chr9:95503600-95517800	Weak transcription	Fetal Intestine Large	intestine
6	chr9:95503800-95523800	Weak transcription	Rectal Mucosa Donor 29	rectum
7	chr9:95507400-95513800	Enhancers	Primary B cells from peripheral blood	blood
8	chr9:95508000-95517800	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr9:95508200-95515000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr9:95508200-95517800	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr9:95508200-95517800	Weak transcription	HUES64 Cell Line	embryonic stem cell
12	chr9:95508400-95514400	Weak transcription	Primary T cells from cord blood	blood
13	chr9:95508400-95516400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
14	chr9:95509400-95513600	Enhancers	Cortex derived primary cultured neurospheres	brain
15	chr9:95509600-95517800	Weak transcription	Thymus	Thymus
16	chr9:95509800-95522000	Weak transcription	Liver	Liver
17	chr9:95510000-95514000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr9:95510200-95514200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr9:95510600-95515000	Weak transcription	GM12878-XiMat	blood
20	chr9:95510800-95514400	Weak transcription	HUVEC	blood vessel
21	chr9:95510800-95514600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
22	chr9:95511000-95513600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
23	chr9:95511000-95515400	Enhancers	Fetal Muscle Leg	muscle
24	chr9:95511000-95516400	Enhancers	Monocytes-CD14+_RO01746	blood
25	chr9:95511000-95518000	Weak transcription	Hela-S3	cervix
26	chr9:95511200-95513600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr9:95511200-95513800	Weak transcription	K562	blood
28	chr9:95511200-95514600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
29	chr9:95511800-95514400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
30	chr9:95511800-95514600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
31	chr9:95511800-95518000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr9:95511800-95518000	Weak transcription	Rectal Mucosa Donor 31	rectum
33	chr9:95512000-95514800	Weak transcription	Duodenum Mucosa	Duodenum
34	chr9:95512000-95516600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
35	chr9:95512000-95517800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr9:95512000-95523400	Weak transcription	Aorta	Aorta
37	chr9:95512000-95525000	Weak transcription	Placenta Amnion	Placenta Amnion
38	chr9:95512200-95514200	Weak transcription	Primary T cells fromperipheralblood	blood
39	chr9:95512200-95514600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
40	chr9:95512200-95515000	Weak transcription	Pancreas	Pancrea
41	chr9:95512200-95515400	Enhancers	iPS-15b Cell Line	embryonic stem cell
42	chr9:95512200-95518000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr9:95512200-95521800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr9:95512400-95513400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
45	chr9:95512400-95513600	Weak transcription	Psoas Muscle	Psoas
46	chr9:95512400-95514000	Enhancers	NHEK	skin
47	chr9:95512400-95514200	Weak transcription	Fetal Thymus	thymus
48	chr9:95512400-95514400	Weak transcription	Duodenum Smooth Muscle	Duodenum
49	chr9:95512400-95514600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
50	chr9:95512400-95514600	Weak transcription	Colon Smooth Muscle	Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links