Variant report

Variant	rs7646257
Chromosome Location	chr3:142181442-142181443
allele	C/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	POLR2A	chr3:142180736-142182809	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:142173107..142175736-chr3:142179768..142182228,2	K562	blood:

Variant related genes	Relation type
ATR	TF binding region

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs34686786	0.84[EUR][1000 genomes]
rs7618253	0.89[EUR][1000 genomes]
rs7624616	0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877556	chr3:141898980-142331360	Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv523945	chr3:141933649-142219542	Enhancers Genic enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
3	nsv877558	chr3:142123841-142331360	Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
4	nsv877559	chr3:142132749-142331360	Active TSS Enhancers Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
5	nsv877560	chr3:142132749-142362179	Strong transcription ZNF genes & repeats Weak transcription Active TSS Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
6	nsv877561	chr3:142152925-142331360	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
7	nsv528954	chr3:142164017-142219542	ZNF genes & repeats Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:142167200-142187600	Weak transcription	Esophagus	oesophagus
2	chr3:142167200-142192400	Weak transcription	Pancreas	Pancrea
3	chr3:142167400-142199400	Weak transcription	Colonic Mucosa	Colon
4	chr3:142167400-142199600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr3:142167400-142234600	Weak transcription	Psoas Muscle	Psoas
6	chr3:142167600-142187200	Weak transcription	Fetal Brain Male	brain
7	chr3:142167600-142191800	Weak transcription	Fetal Brain Female	brain
8	chr3:142167600-142199600	Weak transcription	Ovary	ovary
9	chr3:142167600-142200000	Weak transcription	HSMMtube	muscle
10	chr3:142167600-142203000	Weak transcription	Brain Angular Gyrus	brain
11	chr3:142167800-142184800	Weak transcription	Colon Smooth Muscle	Colon
12	chr3:142167800-142186400	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr3:142167800-142188800	Weak transcription	Brain Cingulate Gyrus	brain
14	chr3:142167800-142190400	Weak transcription	Rectal Smooth Muscle	rectum
15	chr3:142167800-142199400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr3:142167800-142200000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
17	chr3:142167800-142200000	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr3:142168000-142182600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr3:142168000-142192000	Weak transcription	Fetal Lung	lung
20	chr3:142168000-142200000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
21	chr3:142168000-142200000	Weak transcription	Fetal Kidney	kidney
22	chr3:142168200-142185800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr3:142168400-142186400	Strong transcription	Monocytes-CD14+_RO01746	blood
24	chr3:142169000-142187000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
25	chr3:142169800-142192200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr3:142170200-142189200	Weak transcription	Aorta	Aorta
27	chr3:142170600-142199200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr3:142170600-142199600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr3:142170600-142203200	Weak transcription	Spleen	Spleen
30	chr3:142170800-142183200	Weak transcription	GM12878-XiMat	blood
31	chr3:142172400-142187600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
32	chr3:142172800-142199200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
33	chr3:142174400-142182600	Strong transcription	Primary B cells from cord blood	blood
34	chr3:142174400-142184000	Weak transcription	Osteobl	bone
35	chr3:142174800-142183600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr3:142174800-142186400	Strong transcription	Primary monocytes fromperipheralblood	blood
37	chr3:142175400-142182000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr3:142175400-142184200	Weak transcription	Lung	lung
39	chr3:142175400-142192000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr3:142175400-142192400	Weak transcription	Fetal Stomach	stomach
41	chr3:142175400-142199200	Weak transcription	Thymus	Thymus
42	chr3:142176200-142199200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
43	chr3:142177400-142199200	Weak transcription	Right Ventricle	heart
44	chr3:142177600-142200200	Weak transcription	Hela-S3	cervix
45	chr3:142177800-142199200	Weak transcription	Skeletal Muscle Female	skeletal muscle
46	chr3:142177800-142200000	Weak transcription	NH-A	brain
47	chr3:142178000-142184800	Weak transcription	HUES6 Cell Line	embryonic stem cell
48	chr3:142178000-142191800	Weak transcription	Brain Hippocampus Middle	brain
49	chr3:142178000-142199200	Weak transcription	Skeletal Muscle Male	skeletal muscle
50	chr3:142178000-142199600	Weak transcription	Primary T helper naive cells from peripheral blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links