Variant report

Variant	rs732141
Chromosome Location	chr9:97585018-97585019
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:7)
CpG islands
(count:0)
Chromatin interactive
region (count:7)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:7 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	KAP1	chr9:97584291-97585067	HEK293	kidney:	n/a	n/a
2	TCF12	chr9:97584451-97585096	A549	lung:	n/a	n/a
3	STAT3	chr9:97584994-97585173	MCF10A-Er-Src	breast:	n/a	n/a
4	GATA2	chr9:97584628-97585098	HUVEC	blood vessel:	n/a	n/a
5	FOSL2	chr9:97584490-97585092	A549	lung:	n/a	n/a
6	KAP1	chr9:97584471-97585096	U2OS	brain:	n/a	n/a
7	STAT3	chr9:97584588-97585029	Hela-S3	cervix:	n/a	n/a

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:97577390..97585730-chr9:97765650..97771704,20	MCF-7	breast:
2	chr9:97562492..97588737-chr9:97670126..97691056,102	MCF-7	breast:
3	chr9:97579092..97582374-chr9:97582651..97585462,4	MCF-7	breast:
4	chr9:97582635..97586133-chr9:97586428..97590439,5	MCF-7	breast:
5	chr9:97572097..97590438-chr9:97672990..97690806,63	MCF-7	breast:
6	chr9:97584341..97586520-chr9:97595155..97598117,2	MCF-7	breast:
7	chr9:97584438..97586291-chr9:97836319..97838508,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000230815	TF binding region
ENSG00000148120	Chromatin interaction
ENSG00000230815	Chromatin interaction

Extended variants
information (count: 110 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:109)

rs_ID	r²[population]
rs10121865	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10122127	0.82[CEU][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10217427	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10732405	0.80[CEU][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10732406	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10733755	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10739986	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10739991	0.85[YRI][hapmap]
rs10761355	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10761359	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10821405	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10993348	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10993351	0.90[CEU][hapmap];0.86[YRI][hapmap]
rs1113967	0.82[YRI][hapmap]
rs1228614	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12339275	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12340251	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12344537	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12352276	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12553690	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12684703	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13285343	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1530331	0.90[YRI][hapmap]
rs16911661	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1810772	0.91[EUR][1000 genomes]
rs181488	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs187163	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs193292	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2119953	0.82[YRI][hapmap]
rs2119954	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2165716	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2304884	0.82[CEU][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2406899	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs242259	0.91[CEU][hapmap];0.88[YRI][hapmap];0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2584803	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2584804	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2767403	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2767404	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs28647286	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2897523	0.82[YRI][hapmap]
rs34940574	0.80[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs356122	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs356123	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs356124	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs356126	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs356127	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.90[YRI][hapmap];0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs356129	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs356130	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs356134	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs356135	0.80[CEU][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs356137	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs356138	0.88[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs356140	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs356142	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs356143	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs356146	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs374708	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs376902	0.80[CEU][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs380205	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.80[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs384039	0.82[CEU][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3858087	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3858088	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3886568	0.80[YRI][hapmap]
rs389365	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs396538	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs397617	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs400231	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs405110	0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs415016	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs418764	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.80[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs439052	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4437717	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4537361	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs471161	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4744377	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4744379	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4744380	0.80[CEU][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4744383	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs55795862	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs55914113	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs55926255	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs57504746	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs58042095	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6479565	0.92[EUR][1000 genomes]
rs6479570	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6479571	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6479572	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6479574	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs672012	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs67625382	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7025234	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7026714	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs7028317	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7030617	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7031172	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7031518	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs7035166	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs7037652	0.86[AMR][1000 genomes]
rs7041982	0.86[EUR][1000 genomes]
rs7045387	0.82[CEU][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7047864	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7853126	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7861358	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7862700	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7869666	0.80[CEU][hapmap]
rs7870679	0.88[YRI][hapmap]
rs894428	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs913182	0.92[EUR][1000 genomes]
rs9409806	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893596	chr9:97321172-97598966	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs732141	hCG_2003663	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:101 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97563600-97594400	Weak transcription	Primary T helper cells PMA-I stimulated	--
2	chr9:97564000-97589200	Weak transcription	Primary T helper cells fromperipheralblood	blood
3	chr9:97565200-97587000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr9:97567400-97593400	Weak transcription	Thymus	Thymus
5	chr9:97568600-97589000	Weak transcription	Liver	Liver
6	chr9:97568800-97586800	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr9:97569200-97586400	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr9:97569200-97589000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr9:97569400-97587600	Weak transcription	Brain Germinal Matrix	brain
10	chr9:97569400-97589600	Weak transcription	Fetal Thymus	thymus
11	chr9:97569600-97586200	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr9:97570000-97594400	Weak transcription	Dnd41	blood
13	chr9:97570000-97601400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr9:97570400-97590400	Weak transcription	Duodenum Mucosa	Duodenum
15	chr9:97571800-97622600	Weak transcription	Primary B cells from cord blood	blood
16	chr9:97572000-97601600	Weak transcription	Primary T cells fromperipheralblood	blood
17	chr9:97572400-97588600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr9:97572600-97593600	Weak transcription	Monocytes-CD14+_RO01746	blood
19	chr9:97574200-97590000	Weak transcription	Fetal Intestine Large	intestine
20	chr9:97574400-97588600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr9:97575200-97587600	Weak transcription	Stomach Smooth Muscle	stomach
22	chr9:97575400-97586800	Weak transcription	Colon Smooth Muscle	Colon
23	chr9:97576000-97588400	Weak transcription	Right Ventricle	heart
24	chr9:97576200-97588400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr9:97580400-97590600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
26	chr9:97580600-97587800	Weak transcription	Adipose Nuclei	Adipose
27	chr9:97580600-97588600	Weak transcription	Gastric	stomach
28	chr9:97580600-97588600	Weak transcription	Pancreas	Pancrea
29	chr9:97580600-97600200	Weak transcription	Primary hematopoietic stem cells	blood
30	chr9:97581800-97588400	Weak transcription	Spleen	Spleen
31	chr9:97581800-97588600	Weak transcription	Esophagus	oesophagus
32	chr9:97581800-97591800	Weak transcription	Small Intestine	intestine
33	chr9:97581800-97609600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
34	chr9:97582000-97587400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
35	chr9:97582000-97587400	Weak transcription	Fetal Muscle Trunk	muscle
36	chr9:97582000-97588400	Weak transcription	Left Ventricle	heart
37	chr9:97582000-97599400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
38	chr9:97582200-97587200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
39	chr9:97582200-97587200	Weak transcription	Right Atrium	heart
40	chr9:97582200-97587400	Weak transcription	Placenta Amnion	Placenta Amnion
41	chr9:97582200-97588600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
42	chr9:97582200-97588600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr9:97582200-97594000	Weak transcription	NHEK	skin
44	chr9:97582800-97586400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
45	chr9:97583000-97585800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
46	chr9:97583400-97585200	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
47	chr9:97583400-97585800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
48	chr9:97583400-97586400	Strong transcription	Primary T cells from cord blood	blood
49	chr9:97583600-97585200	Enhancers	Brain Cingulate Gyrus	brain
50	chr9:97583800-97585200	Enhancers	Brain Inferior Temporal Lobe	brain

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