Variant report

Variant	rs55896634
Chromosome Location	chr21:45236591-45236592
allele	G/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	CTCF	chr21:45236550-45236904	HepG2	liver:	n/a	chr21:45236735-45236756 chr21:45236742-45236755 chr21:45236741-45236757 chr21:45236740-45236758 chr21:45236638-45236651
2	MAX	chr21:45236479-45237259	MCF-7	breast:	n/a	n/a
3	RAD21	chr21:45236557-45236904	HepG2	liver:	n/a	chr21:45236637-45236651 chr21:45236738-45236757 chr21:45236601-45236614
4	CTCF	chr21:45236540-45236690	HFF	foreskin:	n/a	chr21:45236638-45236651
5	RAD21	chr21:45236582-45236914	H1-hESC	embryonic stem cell:	n/a	chr21:45236637-45236651 chr21:45236738-45236757 chr21:45236601-45236614
6	POLR2A	chr21:45236561-45237822	Hela-S3	cervix:	n/a	n/a
7	CTCF	chr21:45236568-45236901	H1-hESC	embryonic stem cell:	n/a	chr21:45236735-45236756 chr21:45236742-45236755 chr21:45236741-45236757 chr21:45236740-45236758 chr21:45236638-45236651
8	CTCF	chr21:45236589-45236919	H1-hESC	embryonic stem cell:	n/a	chr21:45236735-45236756 chr21:45236742-45236755 chr21:45236741-45236757 chr21:45236740-45236758 chr21:45236638-45236651
9	CTCF	chr21:45236534-45236876	K562	blood:	n/a	chr21:45236735-45236756 chr21:45236742-45236755 chr21:45236741-45236757 chr21:45236740-45236758 chr21:45236638-45236651
10	RAD21	chr21:45236508-45236865	H1-hESC	embryonic stem cell:	n/a	chr21:45236637-45236651 chr21:45236738-45236757 chr21:45236601-45236614
11	POLR2A	chr21:45235726-45237939	K562	blood:	n/a	n/a
12	POLR2A	chr21:45236563-45237328	K562	blood:	n/a	n/a
13	MAX	chr21:45236543-45237015	H1-hESC	embryonic stem cell:	n/a	n/a
14	CTCF	chr21:45236578-45236820	K562	blood:	n/a	chr21:45236735-45236756 chr21:45236742-45236755 chr21:45236741-45236757 chr21:45236740-45236758 chr21:45236638-45236651
15	NR2F2	chr21:45236486-45237412	MCF-7	breast:	n/a	n/a
16	CTCF	chr21:45236569-45236905	GM12878	blood:	n/a	chr21:45236735-45236756 chr21:45236742-45236755 chr21:45236741-45236757 chr21:45236740-45236758 chr21:45236638-45236651
17	CTCF	chr21:45236520-45236885	H1-hESC	embryonic stem cell:	n/a	chr21:45236735-45236756 chr21:45236742-45236755 chr21:45236741-45236757 chr21:45236740-45236758 chr21:45236638-45236651
18	POLR2A	chr21:45236579-45236907	HepG2	liver:	n/a	n/a
19	ZNF143	chr21:45236586-45236861	H1-hESC	embryonic stem cell:	n/a	n/a
20	RAD21	chr21:45236480-45236959	H1-hESC	embryonic stem cell:	n/a	chr21:45236637-45236651 chr21:45236738-45236757 chr21:45236601-45236614
21	CTCF	chr21:45236560-45236710	GM12865	blood:	n/a	chr21:45236638-45236651

No.	Distal block	Cell Line	Cell type
1	chr21:45236395..45237208-chr21:45348998..45349676,2	MCF-7	breast:
2	chr21:45226284..45237567-chr21:45281864..45289573,19	K562	blood:
3	chr21:45233511..45237736-chr21:45356519..45359137,5	K562	blood:
4	chr21:45236177..45236793-chr21:45358789..45359315,2	MCF-7	breast:
5	chr21:45192905..45195528-chr21:45235425..45238416,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000215458	TF binding region
ENSG00000160216	Chromatin interaction

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10048880	0.89[EUR][1000 genomes]
rs10222158	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1136072	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs11909913	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11911218	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2096857	0.82[EUR][1000 genomes]
rs2276245	0.82[EUR][1000 genomes]
rs2838376	0.89[EUR][1000 genomes]
rs2838379	0.89[EUR][1000 genomes]
rs2838400	0.86[AMR][1000 genomes]
rs2838401	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2838402	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs28544397	0.82[EUR][1000 genomes]
rs3788072	0.88[EUR][1000 genomes]
rs4566449	0.91[EUR][1000 genomes]
rs55699458	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs55830074	0.87[EUR][1000 genomes]
rs55889756	0.85[EUR][1000 genomes]
rs56177442	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs58798239	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs58874284	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61028951	0.87[EUR][1000 genomes]
rs61266401	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62229234	0.87[EUR][1000 genomes]
rs62230079	0.88[EUR][1000 genomes]
rs68106965	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs8134342	0.81[ASN][1000 genomes]
rs968578	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9808695	0.86[EUR][1000 genomes]
rs9979356	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9981458	0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:27 , 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	nsv913879	chr21:45145286-45237039	Genic enhancers Strong transcription Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
5	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
6	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
7	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
8	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
9	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
10	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
11	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
12	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
13	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
14	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
15	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
16	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
17	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
18	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
19	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
20	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
21	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
22	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
23	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
24	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
25	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
26	esv19139	chr21:45232877-45241349	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
27	esv3401820	chr21:45234149-45236697	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Genic enhancers Active TSS	TF binding region Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr21:45211000-45257200	Weak transcription	Right Atrium	heart
2	chr21:45224800-45238400	Weak transcription	Aorta	Aorta
3	chr21:45229800-45237000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
4	chr21:45232600-45237200	Weak transcription	Primary neutrophils fromperipheralblood	blood
5	chr21:45232800-45236600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
6	chr21:45232800-45236600	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr21:45232800-45237000	Weak transcription	Liver	Liver
8	chr21:45232800-45238400	Weak transcription	Brain Substantia Nigra	brain
9	chr21:45232800-45241400	Enhancers	Primary monocytes fromperipheralblood	blood
10	chr21:45232800-45244000	Weak transcription	Brain Angular Gyrus	brain
11	chr21:45233200-45237400	Weak transcription	Lung	lung
12	chr21:45234400-45237000	Enhancers	Monocytes-CD14+_RO01746	blood
13	chr21:45234800-45236800	Weak transcription	Brain Hippocampus Middle	brain
14	chr21:45234800-45237000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr21:45234800-45245000	Weak transcription	Brain Anterior Caudate	brain
16	chr21:45235000-45236600	Weak transcription	H1 Cell Line	embryonic stem cell
17	chr21:45235000-45236600	Weak transcription	Spleen	Spleen
18	chr21:45235000-45236800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr21:45235000-45237200	Weak transcription	Adipose Nuclei	Adipose
20	chr21:45235000-45237400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr21:45235000-45237400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr21:45235000-45238400	Weak transcription	Skeletal Muscle Male	skeletal muscle
23	chr21:45235000-45239000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr21:45235000-45244000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
25	chr21:45235400-45236800	Flanking Active TSS	HepG2	liver
26	chr21:45235400-45238600	Bivalent Enhancer	Fetal Muscle Trunk	muscle
27	chr21:45235600-45237400	Weak transcription	Esophagus	oesophagus
28	chr21:45235600-45237800	Genic enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
29	chr21:45235600-45238400	Weak transcription	Rectal Mucosa Donor 31	rectum
30	chr21:45235800-45237000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
31	chr21:45236000-45238200	Weak transcription	HUES6 Cell Line	embryonic stem cell
32	chr21:45236000-45238200	Weak transcription	K562	blood
33	chr21:45236000-45244200	Weak transcription	Right Ventricle	heart
34	chr21:45236000-45245000	Weak transcription	Rectal Mucosa Donor 29	rectum
35	chr21:45236200-45237000	Weak transcription	Fetal Muscle Leg	muscle
36	chr21:45236200-45237000	Weak transcription	Placenta	Placenta
37	chr21:45236200-45238600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
38	chr21:45236400-45236600	Weak transcription	Gastric	stomach
39	chr21:45236400-45237000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
40	chr21:45236400-45237000	Weak transcription	Fetal Intestine Small	intestine

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