Variant report

Variant	rs55638725
Chromosome Location	chr10:21607271-21607272
allele	A/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	GATA3	chr10:21606691-21607482	SK-N-SH	brain:	n/a	chr10:21607463-21607473
2	NFIC	chr10:21606674-21608388	SK-N-SH	brain:	n/a	chr10:21607877-21607905 chr10:21607889-21607905 chr10:21607888-21607905
3	POLR2A	chr10:21606931-21607327	U87	brain:	n/a	n/a
4	JUND	chr10:21606876-21607413	SK-N-SH	brain:	n/a	chr10:21607067-21607079 chr10:21607068-21607078 chr10:21607069-21607077
5	POLR2A	chr10:21606848-21607461	U87	brain:	n/a	n/a
6	JUND	chr10:21606686-21607514	SK-N-SH	brain:	n/a	chr10:21607067-21607079 chr10:21607068-21607078 chr10:21607069-21607077
7	FOSL2	chr10:21606769-21607400	SK-N-SH	brain:	n/a	chr10:21607067-21607079 chr10:21607068-21607078 chr10:21607069-21607077
8	PBX3	chr10:21606861-21607361	SK-N-SH	brain:	n/a	n/a
9	RAD21	chr10:21606872-21607282	IMR90	lung:	n/a	n/a
10	TCF12	chr10:21606801-21608289	SK-N-SH	brain:	n/a	n/a
11	POLR2A	chr10:21606826-21607286	SK-N-SH	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:21569047..21570661-chr10:21604700..21607594,2	MCF-7	breast:

Variant related genes	Relation type
RNU6-15P	TF binding region

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

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10218879	0.89[ASN][1000 genomes]
rs10218952	0.89[ASN][1000 genomes]
rs10218971	0.89[ASN][1000 genomes]
rs10218986	0.89[ASN][1000 genomes]
rs11012642	1.00[ASN][1000 genomes]
rs11012644	1.00[ASN][1000 genomes]
rs11012645	1.00[ASN][1000 genomes]
rs11012646	1.00[ASN][1000 genomes]
rs11012648	1.00[ASN][1000 genomes]
rs11012658	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11012665	0.89[ASN][1000 genomes]
rs11814672	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12240956	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12248522	0.89[ASN][1000 genomes]
rs12250778	0.89[ASN][1000 genomes]
rs12256314	0.89[ASN][1000 genomes]
rs12259097	1.00[AFR][1000 genomes]
rs12359942	1.00[ASN][1000 genomes]
rs13377089	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16921726	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16921729	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16921744	0.89[ASN][1000 genomes]
rs2360046	0.89[ASN][1000 genomes]
rs28460291	1.00[EUR][1000 genomes]
rs28476641	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34299719	0.89[ASN][1000 genomes]
rs55672286	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57729500	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs60558873	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60875963	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61851539	0.89[ASN][1000 genomes]
rs61851542	0.89[ASN][1000 genomes]
rs7070371	0.85[EUR][1000 genomes]
rs7080191	0.89[ASN][1000 genomes]
rs7085637	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7085642	0.93[EUR][1000 genomes]
rs7090939	0.89[ASN][1000 genomes]
rs7091420	0.89[ASN][1000 genomes]
rs74120911	0.93[EUR][1000 genomes]
rs7894995	0.89[ASN][1000 genomes]
rs7900321	1.00[ASN][1000 genomes]
rs7907491	0.89[ASN][1000 genomes]
rs7910000	1.00[ASN][1000 genomes]
rs7913116	0.89[ASN][1000 genomes]
rs7922927	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9971139	1.00[ASN][1000 genomes]
rs9971348	1.00[ASN][1000 genomes]
rs9971367	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530148	chr10:21065080-21724565	Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
2	nsv831807	chr10:21509185-21688043	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	esv2761579	chr10:21554557-21612760	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:21605200-21607600	Weak transcription	Lung	lung
2	chr10:21605200-21607800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr10:21605400-21607400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr10:21605400-21607400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr10:21605400-21607400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr10:21605400-21607400	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr10:21605400-21607600	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr10:21605400-21607600	Weak transcription	Fetal Lung	lung
9	chr10:21605400-21607600	Weak transcription	Fetal Muscle Trunk	muscle
10	chr10:21605400-21607600	Weak transcription	Placenta	Placenta
11	chr10:21605400-21607600	Weak transcription	HUVEC	blood vessel
12	chr10:21605400-21607600	Weak transcription	K562	blood
13	chr10:21605400-21607800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr10:21605400-21608000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr10:21605800-21607600	Weak transcription	Right Ventricle	heart
16	chr10:21606000-21608800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr10:21606600-21608800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr10:21606800-21607800	Enhancers	NHDF-Ad	bronchial
19	chr10:21606800-21607800	Enhancers	Osteobl	bone
20	chr10:21606800-21608000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr10:21606800-21608200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr10:21606800-21608400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
23	chr10:21606800-21608400	Enhancers	Muscle Satellite Cultured Cells	--
24	chr10:21606800-21608400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr10:21606800-21608800	Enhancers	A549	lung
26	chr10:21607000-21607600	Enhancers	HUES48 Cell Line	embryonic stem cell
27	chr10:21607000-21607800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr10:21607000-21607800	Enhancers	HUES64 Cell Line	embryonic stem cell
29	chr10:21607000-21607800	Enhancers	HSMM	muscle
30	chr10:21607000-21608000	Enhancers	ES-I3 Cell Line	embryonic stem cell
31	chr10:21607000-21608000	Enhancers	HUES6 Cell Line	embryonic stem cell
32	chr10:21607000-21608000	Enhancers	Fetal Stomach	stomach
33	chr10:21607000-21608000	Enhancers	Fetal Thymus	thymus
34	chr10:21607000-21608000	Enhancers	Right Atrium	heart
35	chr10:21607000-21608200	Enhancers	Fetal Muscle Leg	muscle
36	chr10:21607000-21608400	Enhancers	NH-A	brain
37	chr10:21607000-21608400	Enhancers	NHLF	lung
38	chr10:21607200-21607400	Enhancers	H9 Cell Line	embryonic stem cell
39	chr10:21607200-21607600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr10:21607200-21607800	Enhancers	iPS-18 Cell Line	embryonic stem cell
41	chr10:21607200-21607800	Weak transcription	Adipose Nuclei	Adipose
42	chr10:21607200-21608000	Enhancers	Cortex derived primary cultured neurospheres	brain
43	chr10:21607200-21608000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
44	chr10:21607200-21608200	Enhancers	Fetal Heart	heart
45	chr10:21607200-21608400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
46	chr10:21607200-21608400	Enhancers	Ovary	ovary
47	chr10:21607200-21608600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
48	chr10:21607200-21608600	Enhancers	Fetal Kidney	kidney

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