Variant report

Variant	rs6661411
Chromosome Location	chr1:84659129-84659130
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs12128677	1.00[ASN][1000 genomes]
rs12129768	1.00[CHB][hapmap];0.89[MEX][hapmap];0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12139683	1.00[ASN][1000 genomes]
rs12144770	1.00[ASN][1000 genomes]
rs17535312	1.00[ASN][1000 genomes]
rs2684910	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv546689	chr1:84531117-84670816	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv871656	chr1:84601048-84693671	Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv997601	chr1:84609346-84672859	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1005225	chr1:84609871-84667950	Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv999772	chr1:84611207-84667218	Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv1013911	chr1:84619164-84667950	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv871375	chr1:84622793-84678418	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	nsv871643	chr1:84628655-84705481	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
9	nsv871538	chr1:84633116-84717983	ZNF genes & repeats Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
10	nsv830414	chr1:84636738-84824651	Weak transcription Strong transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
11	nsv1011105	chr1:84638386-84674276	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
12	esv1837139	chr1:84649799-84670584	Strong transcription Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:84640400-84665000	Weak transcription	NH-A	brain
2	chr1:84646400-84662600	Weak transcription	Colonic Mucosa	Colon
3	chr1:84649400-84659800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr1:84650600-84662400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr1:84652200-84675000	Weak transcription	Pancreas	Pancrea
6	chr1:84652400-84689800	Weak transcription	Aorta	Aorta
7	chr1:84653400-84674800	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr1:84654000-84659400	ZNF genes & repeats	Dnd41	blood
9	chr1:84654400-84659400	ZNF genes & repeats	Primary B cells from peripheral blood	blood
10	chr1:84654800-84659400	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
11	chr1:84654800-84660200	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
12	chr1:84654800-84661000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr1:84654800-84661200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr1:84655000-84659400	ZNF genes & repeats	Primary T cells fromperipheralblood	blood
15	chr1:84655000-84661200	ZNF genes & repeats	Primary hematopoietic stem cells	blood
16	chr1:84655200-84659600	ZNF genes & repeats	Primary B cells from cord blood	blood
17	chr1:84655200-84659600	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
18	chr1:84655800-84660400	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
19	chr1:84656200-84659600	ZNF genes & repeats	Rectal Mucosa Donor 29	rectum
20	chr1:84656400-84659200	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
21	chr1:84656400-84659400	ZNF genes & repeats	Primary T helper cells fromperipheralblood	blood
22	chr1:84656400-84659400	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
23	chr1:84656400-84659600	ZNF genes & repeats	Primary T helper memory cells from peripheral blood 1	blood
24	chr1:84656400-84660000	ZNF genes & repeats	Primary T cells from cord blood	blood
25	chr1:84656600-84660600	Strong transcription	Brain Cingulate Gyrus	brain
26	chr1:84656800-84659600	ZNF genes & repeats	Fetal Muscle Leg	muscle
27	chr1:84656800-84660600	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
28	chr1:84657000-84659600	Strong transcription	Primary T killer memory cells from peripheral blood	blood
29	chr1:84657200-84659400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
30	chr1:84657200-84660400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
31	chr1:84657200-84665400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
32	chr1:84657400-84659200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
33	chr1:84657400-84662400	Weak transcription	HSMM	muscle
34	chr1:84657400-84664800	Weak transcription	Brain Angular Gyrus	brain
35	chr1:84657400-84665000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr1:84657600-84659200	ZNF genes & repeats	Fetal Brain Female	brain
37	chr1:84657600-84708000	Weak transcription	Left Ventricle	heart
38	chr1:84657800-84659400	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr1:84657800-84665400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
40	chr1:84658000-84659600	ZNF genes & repeats	Fetal Muscle Trunk	muscle
41	chr1:84658200-84659400	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
42	chr1:84658200-84659400	ZNF genes & repeats	Liver	Liver
43	chr1:84658200-84659400	ZNF genes & repeats	Rectal Mucosa Donor 31	rectum
44	chr1:84658200-84659600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr1:84658200-84660000	ZNF genes & repeats	Fetal Heart	heart
46	chr1:84658200-84660400	ZNF genes & repeats	Primary neutrophils fromperipheralblood	blood
47	chr1:84658200-84660400	ZNF genes & repeats	Fetal Lung	lung
48	chr1:84658400-84659200	ZNF genes & repeats	Primary T helper naive cells from peripheral blood	blood
49	chr1:84658400-84659400	ZNF genes & repeats	Primary mononuclear cells fromperipheralblood	Blood
50	chr1:84658400-84659400	ZNF genes & repeats	Psoas Muscle	Psoas

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links