Variant report

Variant	rs73606738
Chromosome Location	chr6:149945654-149945655
allele	A/G
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	CTCF	chr6:149945580-149945730	HEEpiC	esophagus:	n/a	n/a

Variant related genes	Relation type
KATNA1	TF binding region

Extended variants
information (count: 42 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11963941	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11964790	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11964826	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17087440	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17087477	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17087520	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17087666	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs35077558	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs35515786	1.00[AFR][1000 genomes]
rs56859590	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57065071	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57925355	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61666489	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6926725	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6926874	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6938702	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73602752	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73602754	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604736	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604737	0.90[AFR][1000 genomes]
rs73604743	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604754	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604776	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604778	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604779	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604781	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73604784	1.00[AFR][1000 genomes]
rs73604790	1.00[AFR][1000 genomes]
rs73604795	1.00[AFR][1000 genomes]
rs73604799	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73606715	1.00[AFR][1000 genomes]
rs73606737	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7746594	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7771139	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7773304	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9689443	1.00[AFR][1000 genomes]
rs9766104	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9767369	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv289	chr6:149864898-149998818	Flanking Active TSS Weak transcription Strong transcription Active TSS ZNF genes & repeats Enhancers Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv5534	chr6:149864898-149998818	Active TSS Flanking Active TSS Enhancers Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
3	nsv886762	chr6:149866452-150174507	Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
4	esv1792620	chr6:149909491-150083621	Enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149915600-149968400	Weak transcription	Pancreas	Pancrea
2	chr6:149915600-149969200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr6:149915800-149969200	Weak transcription	Gastric	stomach
4	chr6:149916400-149950200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr6:149918400-149950200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr6:149918800-149967600	Weak transcription	HUVEC	blood vessel
7	chr6:149918800-149967600	Weak transcription	NHLF	lung
8	chr6:149919400-149949000	Weak transcription	Osteobl	bone
9	chr6:149923000-149952200	Weak transcription	NH-A	brain
10	chr6:149923400-149947600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr6:149924800-149967400	Weak transcription	Colon Smooth Muscle	Colon
12	chr6:149924800-149968000	Weak transcription	Fetal Kidney	kidney
13	chr6:149925200-149967000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr6:149935000-149967000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
15	chr6:149935200-149959200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr6:149935200-149966200	Weak transcription	Hela-S3	cervix
17	chr6:149935200-149967800	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr6:149935200-149968000	Weak transcription	Brain Angular Gyrus	brain
19	chr6:149935200-149969000	Weak transcription	Small Intestine	intestine
20	chr6:149935400-149948200	Weak transcription	Stomach Smooth Muscle	stomach
21	chr6:149935400-149948800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr6:149935400-149948800	Weak transcription	Psoas Muscle	Psoas
23	chr6:149935400-149958200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr6:149935400-149968000	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr6:149935600-149948400	Weak transcription	Brain Anterior Caudate	brain
26	chr6:149935600-149968000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
27	chr6:149935600-149968400	Weak transcription	Esophagus	oesophagus
28	chr6:149935800-149968600	Weak transcription	Aorta	Aorta
29	chr6:149936000-149948800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr6:149936000-149967000	Weak transcription	Primary hematopoietic stem cells	blood
31	chr6:149936000-149967200	Weak transcription	HMEC	breast
32	chr6:149936000-149968000	Weak transcription	Right Ventricle	heart
33	chr6:149936200-149948800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
34	chr6:149936800-149969000	Weak transcription	Lung	lung
35	chr6:149937400-149968000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr6:149938400-149960800	Weak transcription	Fetal Heart	heart
37	chr6:149939600-149946400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
38	chr6:149940000-149946200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
39	chr6:149940000-149958400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
40	chr6:149940200-149954200	Strong transcription	Dnd41	blood
41	chr6:149940400-149946000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
42	chr6:149940400-149950000	Strong transcription	Fetal Stomach	stomach
43	chr6:149940600-149946600	Strong transcription	Monocytes-CD14+_RO01746	blood
44	chr6:149941200-149956400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
45	chr6:149941400-149953600	Weak transcription	Rectal Smooth Muscle	rectum
46	chr6:149941400-149967600	Weak transcription	Brain Substantia Nigra	brain
47	chr6:149941400-149967600	Weak transcription	Fetal Brain Male	brain
48	chr6:149941400-149968000	Weak transcription	Brain Hippocampus Middle	brain
49	chr6:149942200-149950000	Weak transcription	HUES48 Cell Line	embryonic stem cell
50	chr6:149942200-149950000	Weak transcription	Fetal Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links