Variant report

Variant	rs6583986
Chromosome Location	chr10:97002308-97002309
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr10:97002277-97002832	GM12892	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:97001343..97004286-chr10:97048422..97051252,2	K562	blood:

Variant related genes	Relation type
PDLIM1	TF binding region
ENSG00000107438	Chromatin interaction

Extended variants
information (count: 87 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:84)

rs_ID	r²[population]
rs1032097	1.00[EUR][1000 genomes]
rs1032098	1.00[EUR][1000 genomes]
rs11572073	1.00[EUR][1000 genomes]
rs11572081	1.00[EUR][1000 genomes]
rs11572089	1.00[EUR][1000 genomes]
rs11572132	1.00[EUR][1000 genomes]
rs11572145	1.00[EUR][1000 genomes]
rs11572148	1.00[EUR][1000 genomes]
rs11572176	1.00[EUR][1000 genomes]
rs11812764	1.00[EUR][1000 genomes]
rs11813834	1.00[EUR][1000 genomes]
rs11814600	1.00[EUR][1000 genomes]
rs11815378	1.00[EUR][1000 genomes]
rs11816316	1.00[EUR][1000 genomes]
rs11816732	1.00[EUR][1000 genomes]
rs11817176	1.00[EUR][1000 genomes]
rs11817388	1.00[EUR][1000 genomes]
rs11818486	1.00[EUR][1000 genomes]
rs11819238	1.00[EUR][1000 genomes]
rs2094293	1.00[EUR][1000 genomes]
rs2094294	1.00[EUR][1000 genomes]
rs2860950	1.00[EUR][1000 genomes]
rs2860951	1.00[EUR][1000 genomes]
rs45454292	1.00[EUR][1000 genomes]
rs45487391	1.00[EUR][1000 genomes]
rs45491002	1.00[EUR][1000 genomes]
rs45495404	1.00[EUR][1000 genomes]
rs45620737	1.00[EUR][1000 genomes]
rs55700247	1.00[EUR][1000 genomes]
rs55740007	1.00[EUR][1000 genomes]
rs55786415	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55915838	1.00[EUR][1000 genomes]
rs55937167	1.00[EUR][1000 genomes]
rs56094588	1.00[EUR][1000 genomes]
rs56187632	1.00[EUR][1000 genomes]
rs56264187	1.00[EUR][1000 genomes]
rs56412102	1.00[EUR][1000 genomes]
rs56979418	1.00[EUR][1000 genomes]
rs56999073	1.00[EUR][1000 genomes]
rs58894719	1.00[EUR][1000 genomes]
rs59277980	1.00[EUR][1000 genomes]
rs59282006	1.00[EUR][1000 genomes]
rs59329992	1.00[EUR][1000 genomes]
rs59485845	1.00[EUR][1000 genomes]
rs60480656	1.00[EUR][1000 genomes]
rs60916665	1.00[EUR][1000 genomes]
rs61478963	1.00[EUR][1000 genomes]
rs61634481	1.00[EUR][1000 genomes]
rs6583982	1.00[EUR][1000 genomes]
rs7070484	1.00[EUR][1000 genomes]
rs7074994	1.00[ASW][hapmap];0.93[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7078505	1.00[EUR][1000 genomes]
rs7083576	1.00[EUR][1000 genomes]
rs7083837	1.00[EUR][1000 genomes]
rs7084045	1.00[EUR][1000 genomes]
rs7085646	1.00[EUR][1000 genomes]
rs7087494	1.00[EUR][1000 genomes]
rs7088962	1.00[EUR][1000 genomes]
rs7090248	1.00[EUR][1000 genomes]
rs7090669	1.00[EUR][1000 genomes]
rs7090961	1.00[EUR][1000 genomes]
rs7091711	1.00[EUR][1000 genomes]
rs7093626	1.00[EUR][1000 genomes]
rs7100479	1.00[EUR][1000 genomes]
rs74150750	1.00[EUR][1000 genomes]
rs74150764	1.00[EUR][1000 genomes]
rs74150766	1.00[EUR][1000 genomes]
rs74150767	1.00[EUR][1000 genomes]
rs74150768	1.00[EUR][1000 genomes]
rs74150772	1.00[EUR][1000 genomes]
rs74150780	1.00[EUR][1000 genomes]
rs74150781	1.00[EUR][1000 genomes]
rs74150782	1.00[EUR][1000 genomes]
rs74150785	1.00[EUR][1000 genomes]
rs74150786	1.00[EUR][1000 genomes]
rs74150790	1.00[EUR][1000 genomes]
rs74150792	1.00[EUR][1000 genomes]
rs74150793	1.00[EUR][1000 genomes]
rs74150795	1.00[EUR][1000 genomes]
rs7894207	1.00[EUR][1000 genomes]
rs7915255	1.00[EUR][1000 genomes]
rs7918727	1.00[EUR][1000 genomes]
rs7918803	1.00[EUR][1000 genomes]
rs7919415	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv497859	chr10:96058024-97027747	Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv529726	chr10:96632494-97106315	Strong transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	esv15160	chr10:96942869-97074756	Bivalent Enhancer Active TSS Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:91 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:96990800-97005200	Weak transcription	Psoas Muscle	Psoas
2	chr10:96991000-97006400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr10:96991000-97006400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr10:96991000-97006600	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr10:96991000-97006600	Weak transcription	Colon Smooth Muscle	Colon
6	chr10:96991000-97006600	Weak transcription	Right Atrium	heart
7	chr10:96991000-97007600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr10:96991000-97020400	Weak transcription	Fetal Muscle Leg	muscle
9	chr10:96991000-97024000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr10:96991400-97019000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
11	chr10:96992000-97005000	Strong transcription	Duodenum Mucosa	Duodenum
12	chr10:96992000-97005800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr10:96992200-97009000	Strong transcription	Liver	Liver
14	chr10:96992400-97006200	Strong transcription	Placenta Amnion	Placenta Amnion
15	chr10:96992600-97004000	Strong transcription	Fetal Intestine Large	intestine
16	chr10:96995200-97002600	Strong transcription	HUES48 Cell Line	embryonic stem cell
17	chr10:96996200-97004000	Strong transcription	Fetal Intestine Small	intestine
18	chr10:96996200-97006600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
19	chr10:96996400-97016000	Weak transcription	Pancreatic Islets	Pancreatic Islet
20	chr10:96996600-97007000	Strong transcription	Rectal Mucosa Donor 29	rectum
21	chr10:96996800-97002600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr10:96996800-97005000	Strong transcription	Primary B cells from peripheral blood	blood
23	chr10:96996800-97006600	Weak transcription	HUVEC	blood vessel
24	chr10:96996800-97009400	Strong transcription	Sigmoid Colon	Sigmoid Colon
25	chr10:96997600-97004800	Weak transcription	NH-A	brain
26	chr10:96997600-97006200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr10:96998000-97005800	Weak transcription	Hela-S3	cervix
28	chr10:96998000-97006400	Weak transcription	NHDF-Ad	bronchial
29	chr10:96998200-97005000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
30	chr10:96998200-97009400	Weak transcription	Small Intestine	intestine
31	chr10:96998400-97002600	Weak transcription	Stomach Mucosa	stomach
32	chr10:96998400-97003200	Strong transcription	Rectal Mucosa Donor 31	rectum
33	chr10:96998400-97006200	Weak transcription	Stomach Smooth Muscle	stomach
34	chr10:96998400-97006400	Weak transcription	HSMM	muscle
35	chr10:96998400-97006600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
36	chr10:96998400-97030200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
37	chr10:96999400-97002600	Strong transcription	ES-I3 Cell Line	embryonic stem cell
38	chr10:96999600-97008600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
39	chr10:96999800-97002600	Strong transcription	Skeletal Muscle Male	skeletal muscle
40	chr10:96999800-97006600	Strong transcription	Adipose Nuclei	Adipose
41	chr10:96999800-97009000	Strong transcription	Primary B cells from cord blood	blood
42	chr10:97000000-97002400	Strong transcription	K562	blood
43	chr10:97000000-97002600	Strong transcription	H9 Cell Line	embryonic stem cell
44	chr10:97000000-97005600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr10:97000000-97006400	Strong transcription	NHEK	skin
46	chr10:97000000-97006600	Strong transcription	iPS-15b Cell Line	embryonic stem cell
47	chr10:97000000-97006800	Strong transcription	Gastric	stomach
48	chr10:97000000-97009400	Strong transcription	Colonic Mucosa	Colon
49	chr10:97000200-97002400	Strong transcription	A549	lung
50	chr10:97000200-97002400	Strong transcription	NHLF	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links