Variant report

Variant	rs1140865
Chromosome Location	chr3:46450884-46450885
allele	A/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	chr3:46450527-46452937	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:46447015..46450131-chr3:46450692..46453311,4	K562	blood:

Variant related genes	Relation type
CCRL2	TF binding region
ENSG00000223552	TF binding region
ENSG00000121797	Chromatin interaction
ENSG00000223552	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs11574428	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11574429	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11574434	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11574435	0.84[EUR][1000 genomes]
rs11575821	0.96[EUR][1000 genomes]
rs2157061	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2157062	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2856758	0.97[EUR][1000 genomes]
rs3092960	0.87[EUR][1000 genomes]
rs3136535	0.92[EUR][1000 genomes]
rs34291293	0.95[EUR][1000 genomes]
rs34445878	0.96[EUR][1000 genomes]
rs34971514	0.95[EUR][1000 genomes]
rs35388950	0.95[EUR][1000 genomes]
rs41490645	0.92[EUR][1000 genomes]
rs4452362	0.83[EUR][1000 genomes]
rs4453882	0.81[EUR][1000 genomes]
rs57093591	0.87[EUR][1000 genomes]
rs6770674	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6782522	1.00[EUR][1000 genomes]
rs6787972	0.98[EUR][1000 genomes]
rs6791789	0.99[EUR][1000 genomes]
rs6798291	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6808835	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs762790	0.88[EUR][1000 genomes]
rs7652037	0.96[EUR][1000 genomes]
rs916094	0.86[AMR][1000 genomes];0.99[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	nsv876734	chr3:45725031-46468467	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	esv3323840	chr3:46352348-46497196	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	esv3389382	chr3:46352798-46496696	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46438800-46459800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr3:46448200-46452000	Enhancers	Dnd41	blood
3	chr3:46448600-46460000	Weak transcription	Gastric	stomach
4	chr3:46449200-46451400	Weak transcription	Brain Hippocampus Middle	brain
5	chr3:46449200-46451800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
6	chr3:46449400-46453000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr3:46449600-46451000	Genic enhancers	Fetal Intestine Small	intestine
8	chr3:46449600-46451200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
9	chr3:46449600-46451200	Weak transcription	Primary T helper cells PMA-I stimulated	--
10	chr3:46449600-46452000	Enhancers	K562	blood
11	chr3:46449600-46453800	Weak transcription	Primary neutrophils fromperipheralblood	blood
12	chr3:46449600-46454000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr3:46449600-46457600	Weak transcription	Primary B cells from cord blood	blood
14	chr3:46449800-46451000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr3:46449800-46451000	Genic enhancers	Fetal Thymus	thymus
16	chr3:46449800-46451200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
17	chr3:46449800-46451400	Weak transcription	Primary T cells fromperipheralblood	blood
18	chr3:46449800-46451800	Enhancers	Primary hematopoietic stem cells	blood
19	chr3:46449800-46452000	Enhancers	Primary hematopoietic stem cells short term culture	blood
20	chr3:46449800-46453800	Weak transcription	Small Intestine	intestine
21	chr3:46450000-46451200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
22	chr3:46450000-46451200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr3:46450000-46451600	Weak transcription	Brain Anterior Caudate	brain
24	chr3:46450000-46451600	Weak transcription	Spleen	Spleen
25	chr3:46450000-46457600	Weak transcription	Stomach Mucosa	stomach
26	chr3:46450000-46457800	Weak transcription	Rectal Mucosa Donor 29	rectum
27	chr3:46450200-46451000	Transcr. at gene 5' and 3'	Lung	lung
28	chr3:46450200-46451400	Weak transcription	Right Ventricle	heart
29	chr3:46450200-46451800	Weak transcription	Right Atrium	heart
30	chr3:46450200-46451800	Weak transcription	HSMMtube	muscle
31	chr3:46450200-46452200	Weak transcription	Placenta	Placenta
32	chr3:46450200-46452400	Weak transcription	NHLF	lung
33	chr3:46450200-46452800	Weak transcription	Colonic Mucosa	Colon
34	chr3:46450200-46454200	Weak transcription	Fetal Lung	lung
35	chr3:46450200-46456800	Weak transcription	Fetal Intestine Large	intestine
36	chr3:46450200-46457400	Weak transcription	Rectal Mucosa Donor 31	rectum
37	chr3:46450200-46457600	Weak transcription	Sigmoid Colon	Sigmoid Colon
38	chr3:46450400-46451000	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr3:46450400-46451600	Weak transcription	Fetal Heart	heart
40	chr3:46450400-46452200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr3:46450400-46452600	Enhancers	Thymus	Thymus
42	chr3:46450400-46454200	Weak transcription	Skeletal Muscle Male	skeletal muscle
43	chr3:46450600-46451000	Strong transcription	Primary monocytes fromperipheralblood	blood
44	chr3:46450600-46451400	Weak transcription	Monocytes-CD14+_RO01746	blood
45	chr3:46450600-46451600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
46	chr3:46450600-46451600	Weak transcription	Left Ventricle	heart
47	chr3:46450600-46451600	Weak transcription	HSMM	muscle
48	chr3:46450600-46451800	Weak transcription	Osteobl	bone
49	chr3:46450600-46454000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr3:46450600-46454000	Weak transcription	Skeletal Muscle Female	skeletal muscle

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