Variant report

Variant	rs17004612
Chromosome Location	chr21:45246268-45246269
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr21:45244325..45246343-chr21:45341504..45344218,2	K562	blood:
2	chr21:45244798..45246785-chr21:45283892..45286070,2	MCF-7	breast:
3	chr21:45231023..45235105-chr21:45244093..45247662,3	MCF-7	breast:
4	chr21:45238343..45240639-chr21:45244780..45247104,2	MCF-7	breast:
5	chr21:45225718..45228025-chr21:45244966..45246549,2	MCF-7	breast:
6	chr21:45245397..45247406-chr21:45719221..45721877,2	K562	blood:

Variant related genes	Relation type
ENSG00000141959	Chromatin interaction
ENSG00000160216	Chromatin interaction
ENSG00000215458	Chromatin interaction

Extended variants
information (count: 52 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11089097	0.86[ASN][1000 genomes]
rs1136072	0.94[ASN][1000 genomes]
rs11909011	0.83[ASN][1000 genomes]
rs11909278	0.86[ASN][1000 genomes]
rs1537118	0.81[JPT][hapmap]
rs1537120	0.81[JPT][hapmap]
rs2838373	0.80[CHB][hapmap];0.81[JPT][hapmap]
rs2838385	0.80[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs2838391	0.84[CHB][hapmap];0.81[JPT][hapmap];0.86[ASN][1000 genomes]
rs2838400	0.81[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs2838405	0.90[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs2838414	0.81[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs2838422	0.81[ASN][1000 genomes]
rs28759507	0.81[JPT][hapmap]
rs34851196	0.96[ASN][1000 genomes]
rs4818870	0.92[ASN][1000 genomes]
rs4819314	0.87[CEU][hapmap];0.81[JPT][hapmap]
rs55663506	0.86[ASN][1000 genomes]
rs55825369	0.86[ASN][1000 genomes]
rs55982230	0.86[ASN][1000 genomes]
rs56387943	0.84[ASN][1000 genomes]
rs62227538	0.91[ASN][1000 genomes]
rs6518328	0.92[ASN][1000 genomes]
rs7276547	0.98[ASN][1000 genomes]
rs762413	0.80[ASN][1000 genomes]
rs8132984	0.93[ASN][1000 genomes]
rs915770	0.81[JPT][hapmap];0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:25 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531545	chr21:45095397-45395904	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv913876	chr21:45119629-45267193	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
3	esv2830066	chr21:45133868-45258047	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	nsv913880	chr21:45145286-45263920	Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Strong transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
5	nsv913881	chr21:45145286-45267193	Flanking Active TSS Strong transcription Active TSS Weak transcription Enhancers Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
6	nsv470904	chr21:45151045-45258047	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
7	nsv913882	chr21:45151874-45370715	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
8	nsv834107	chr21:45155325-45294546	Enhancers Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Weak transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
9	esv33817	chr21:45169412-46031810	Weak transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	121 gene(s)	inside rSNPs	diseases
10	nsv520305	chr21:45175958-45246326	Strong transcription Genic enhancers Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
11	nsv834108	chr21:45178037-45369641	Weak transcription Flanking Active TSS Enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
12	nsv913883	chr21:45191139-45252838	Weak transcription Strong transcription Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
13	nsv913884	chr21:45191139-45255836	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
14	nsv544469	chr21:45194085-45257959	Active TSS Genic enhancers Flanking Bivalent TSS/Enh Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
15	nsv913885	chr21:45206355-45249474	Weak transcription Enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
16	nsv587718	chr21:45210932-45252838	Flanking Bivalent TSS/Enh Weak transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
17	nsv1065007	chr21:45212880-45257959	Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
18	nsv544470	chr21:45212880-45257959	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
19	nsv459292	chr21:45218440-45269841	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
20	nsv587719	chr21:45218440-45269841	Weak transcription Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
21	nsv522204	chr21:45220483-45246326	Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
22	nsv913886	chr21:45220483-45267193	Active TSS Enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Weak transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
23	esv1844567	chr21:45230974-45246326	Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
24	nsv587720	chr21:45232322-45263920	Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
25	nsv519385	chr21:45237039-45263920	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr21:45211000-45257200	Weak transcription	Right Atrium	heart
2	chr21:45244200-45247200	Enhancers	Psoas Muscle	Psoas
3	chr21:45244400-45246400	Enhancers	Esophagus	oesophagus
4	chr21:45244800-45246600	Enhancers	Spleen	Spleen
5	chr21:45245000-45246400	Weak transcription	Monocytes-CD14+_RO01746	blood
6	chr21:45245200-45246800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr21:45245200-45246800	Weak transcription	NHDF-Ad	bronchial
8	chr21:45245200-45247200	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr21:45245200-45249000	Weak transcription	K562	blood
10	chr21:45245400-45247000	Weak transcription	NH-A	brain
11	chr21:45245600-45247400	Bivalent Enhancer	Fetal Muscle Trunk	muscle
12	chr21:45245800-45246800	Genic enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr21:45245800-45247200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr21:45245800-45247200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
15	chr21:45245800-45247600	Bivalent Enhancer	Fetal Muscle Leg	muscle
16	chr21:45246000-45246600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr21:45246000-45246600	Bivalent Enhancer	Cortex derived primary cultured neurospheres	brain
18	chr21:45246000-45246800	Enhancers	H1 Cell Line	embryonic stem cell
19	chr21:45246000-45246800	Enhancers	HUES6 Cell Line	embryonic stem cell
20	chr21:45246000-45246800	Bivalent Enhancer	Fetal Stomach	stomach
21	chr21:45246000-45246800	Enhancers	Right Ventricle	heart
22	chr21:45246000-45247000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr21:45246000-45247000	Enhancers	Pancreas	Pancrea
24	chr21:45246000-45247000	Bivalent Enhancer	Stomach Mucosa	stomach
25	chr21:45246000-45247200	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
26	chr21:45246000-45247200	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
27	chr21:45246200-45246400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr21:45246200-45246400	Bivalent Enhancer	Breast Myoepithelial Primary Cells	Breast
29	chr21:45246200-45246600	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr21:45246200-45246600	Bivalent Enhancer	Fetal Intestine Large	intestine
31	chr21:45246200-45246800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
32	chr21:45246200-45246800	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin02	Skin
33	chr21:45246200-45246800	Bivalent Enhancer	Placenta	Placenta
34	chr21:45246200-45247000	Enhancers	Fetal Heart	heart
35	chr21:45246200-45247200	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr21:45246200-45247200	Bivalent Enhancer	Stomach Smooth Muscle	stomach
37	chr21:45246200-45247200	Flanking Bivalent TSS/Enh	HepG2	liver

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