Variant report

Variant	rs12122102
Chromosome Location	chr1:246957154-246957155
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:246947863..246950737-chr1:246955534..246958026,3	K562	blood:

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10127783	1.00[CHB][hapmap];0.84[CHD][hapmap]
rs10159002	1.00[CHB][hapmap]
rs10754532	1.00[CHB][hapmap];0.88[CHD][hapmap]
rs10754533	0.86[CHB][hapmap]
rs10924820	1.00[CHB][hapmap];0.88[CHD][hapmap]
rs10924823	1.00[CHB][hapmap];0.87[CHD][hapmap]
rs10924824	1.00[CHB][hapmap];0.88[CHD][hapmap]
rs12085330	1.00[CHB][hapmap];1.00[YRI][hapmap]
rs12117291	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12120124	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12132038	1.00[ASW][hapmap];0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12566739	0.87[CEU][hapmap];0.83[MEX][hapmap];0.87[EUR][1000 genomes]
rs3007316	1.00[ASW][hapmap];1.00[CHB][hapmap]
rs3007319	1.00[YRI][hapmap]
rs3007322	1.00[CHB][hapmap];1.00[YRI][hapmap]
rs3007324	1.00[ASW][hapmap];0.93[CHB][hapmap];0.88[CHD][hapmap];1.00[YRI][hapmap]
rs34989088	0.81[ASN][1000 genomes]
rs3795463	1.00[CHB][hapmap]
rs3795464	1.00[CHB][hapmap];0.81[AFR][1000 genomes]
rs3935607	0.87[CEU][hapmap];0.83[MEX][hapmap]
rs4130317	0.87[CHB][hapmap];0.81[CHD][hapmap]
rs4244627	1.00[CHB][hapmap];0.88[CHD][hapmap]
rs4926446	0.87[CEU][hapmap];0.85[EUR][1000 genomes]
rs4926459	1.00[CHB][hapmap]
rs4926462	0.83[CEU][hapmap]
rs60779884	0.86[EUR][1000 genomes]
rs6426323	0.87[CHB][hapmap]
rs6426326	1.00[CHB][hapmap]
rs6664883	1.00[CHB][hapmap]
rs6685364	1.00[CHB][hapmap];0.88[CHD][hapmap]
rs7416239	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap]
rs7532928	0.87[CHB][hapmap];0.81[CHD][hapmap]
rs9426218	0.93[CHB][hapmap];1.00[YRI][hapmap]
rs9426271	0.93[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:17 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949571	chr1:246688635-247240863	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
2	nsv873421	chr1:246818634-247044692	Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
3	esv2762192	chr1:246823857-247069232	Weak transcription Strong transcription ZNF genes & repeats Enhancers Active TSS Genic enhancers Flanking Active TSS 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	21 gene(s)	inside rSNPs	diseases
4	nsv1006271	chr1:246832606-247276182	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
5	nsv535416	chr1:246832606-247276182	Strong transcription ZNF genes & repeats Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
6	nsv430413	chr1:246845971-246975015	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
7	nsv873422	chr1:246854862-247002638	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
8	nsv1011346	chr1:246868799-247133898	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
9	nsv1006262	chr1:246892826-246964775	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
10	nsv523531	chr1:246893948-246967899	Enhancers Strong transcription Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
11	nsv999756	chr1:246894542-246969660	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Active TSS 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	14 gene(s)	inside rSNPs	diseases
12	nsv1009436	chr1:246910373-246965832	Bivalent/Poised TSS Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
13	nsv873423	chr1:246923861-246978504	Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Weak transcription Active TSS Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
14	nsv549545	chr1:246936353-246963019	Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
15	nsv525154	chr1:246954166-246963019	Bivalent Enhancer Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Strong transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
16	esv3340001	chr1:246956154-246958702	Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
17	esv3438105	chr1:246956529-246958527	Weak transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:246949000-246957600	Weak transcription	NHDF-Ad	bronchial
2	chr1:246949400-246957600	Weak transcription	NHLF	lung
3	chr1:246952600-246957600	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr1:246952600-246957800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr1:246952800-246957600	Weak transcription	Fetal Brain Female	brain
6	chr1:246952800-246957800	Weak transcription	Monocytes-CD14+_RO01746	blood
7	chr1:246953000-246957600	Weak transcription	Fetal Heart	heart
8	chr1:246953000-246957600	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr1:246953000-246957600	Weak transcription	Right Ventricle	heart
10	chr1:246953000-246957800	Weak transcription	Fetal Intestine Small	intestine
11	chr1:246953200-246957600	Weak transcription	Spleen	Spleen
12	chr1:246953400-246957600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr1:246953400-246957600	Weak transcription	Fetal Lung	lung
14	chr1:246953400-246957600	Weak transcription	Ovary	ovary
15	chr1:246953400-246958000	Weak transcription	Fetal Kidney	kidney
16	chr1:246953400-246961600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
17	chr1:246954800-246957600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr1:246955600-246959400	Enhancers	iPS-15b Cell Line	embryonic stem cell
19	chr1:246956000-246957600	Enhancers	HUES6 Cell Line	embryonic stem cell
20	chr1:246956200-246957400	Enhancers	ES-I3 Cell Line	embryonic stem cell
21	chr1:246956200-246959000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr1:246956200-246959200	Enhancers	HUES64 Cell Line	embryonic stem cell
23	chr1:246956200-246959400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
24	chr1:246956400-246958400	Enhancers	H9 Cell Line	embryonic stem cell
25	chr1:246956400-246958600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr1:246956400-246959200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
27	chr1:246956400-246959200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr1:246956400-246959200	Enhancers	iPS-20b Cell Line	embryonic stem cell
29	chr1:246956400-246959400	Enhancers	HUES48 Cell Line	embryonic stem cell
30	chr1:246956400-246959400	Enhancers	iPS-18 Cell Line	embryonic stem cell
31	chr1:246956400-246959800	Enhancers	H1 Cell Line	embryonic stem cell
32	chr1:246956600-246957600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr1:246956600-246958000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr1:246956600-246958400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr1:246956600-246958800	Enhancers	Placenta	Placenta
36	chr1:246956600-246959800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
37	chr1:246956800-246957200	Enhancers	Primary monocytes fromperipheralblood	blood
38	chr1:246956800-246957200	Enhancers	Fetal Brain Male	brain
39	chr1:246956800-246957200	Enhancers	Fetal Intestine Large	intestine
40	chr1:246956800-246957600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
41	chr1:246956800-246957600	Enhancers	Hela-S3	cervix
42	chr1:246956800-246957800	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
43	chr1:246956800-246958000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
44	chr1:246956800-246958400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr1:246956800-246958400	Enhancers	Fetal Stomach	stomach
46	chr1:246956800-246958600	Enhancers	Left Ventricle	heart
47	chr1:246957000-246957400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
48	chr1:246957000-246957400	Weak transcription	Fetal Muscle Leg	muscle
49	chr1:246957000-246957400	Weak transcription	K562	blood
50	chr1:246957000-246957600	Weak transcription	A549	lung

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