Variant report

Variant	rs10934123
Chromosome Location	chr3:111629392-111629393
allele	C/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	MAX	chr3:111629164-111630225	HCT-116	colon:	n/a	n/a
2	MXI1	chr3:111629356-111630174	IMR90	lung:	n/a	n/a
3	POLR2A	chr3:111626636-111630673	Hela-S3	cervix:	n/a	n/a
4	POLR2A	chr3:111629303-111629581	HCT-116	colon:	n/a	n/a
5	SP1	chr3:111629130-111630828	HCT-116	colon:	n/a	chr3:111630366-111630380
6	POLR2A	chr3:111629242-111630675	Hela-S3	cervix:	n/a	n/a
7	CEBPB	chr3:111629186-111630255	HCT-116	colon:	n/a	chr3:111629279-111629292 chr3:111629261-111629273 chr3:111629931-111629944 chr3:111629931-111629944 chr3:111629931-111629942
8	POLR2A	chr3:111629090-111630068	HCT-116	colon:	n/a	n/a

Variant related genes	Relation type
PHLDB2	TF binding region

Extended variants
information (count: 44 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10934122	0.89[ASN][1000 genomes]
rs10934124	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10934125	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12487003	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12491508	0.95[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12493023	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12493285	0.94[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12495997	1.00[CHB][hapmap];0.95[JPT][hapmap];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12631997	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1282944	1.00[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1282955	0.87[CEU][hapmap];0.94[JPT][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1282957	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1282960	0.84[CEU][hapmap];0.95[JPT][hapmap];0.93[TSI][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1282961	0.84[CEU][hapmap];0.95[JPT][hapmap];0.93[TSI][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13065448	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1443077	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1500046	0.90[YRI][hapmap]
rs1587455	0.88[ASN][1000 genomes]
rs16858868	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1709211	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2137898	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2175907	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2175908	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3749297	0.93[ASW][hapmap];0.84[CEU][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];0.80[MEX][hapmap];0.81[MKK][hapmap];0.93[TSI][hapmap];0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4145113	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[GIH][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4608659	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60821969	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62277591	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62277592	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6438021	0.95[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6775272	0.81[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs6784285	0.93[ASW][hapmap];0.88[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.88[MEX][hapmap];0.91[MKK][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6785402	0.98[ASN][1000 genomes]
rs6785554	0.82[AFR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6786655	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6796290	0.89[ASN][1000 genomes]
rs6802150	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6805339	0.90[YRI][hapmap]
rs7618633	0.83[CEU][hapmap];0.81[GIH][hapmap];0.95[TSI][hapmap];0.94[EUR][1000 genomes]
rs7618841	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7621455	0.90[ASN][1000 genomes]
rs7621473	0.88[ASN][1000 genomes]
rs955566	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs968825	0.93[ASW][hapmap];0.84[CEU][hapmap];0.95[JPT][hapmap];0.85[LWK][hapmap];0.80[MEX][hapmap];0.81[MKK][hapmap];0.93[TSI][hapmap];0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10934123	SIDT1	cis	parietal	SCAN

Chromatin state (count:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:111591600-111633200	Weak transcription	Fetal Kidney	kidney
2	chr3:111604000-111632200	Weak transcription	Gastric	stomach
3	chr3:111604400-111629400	Weak transcription	Ovary	ovary
4	chr3:111604400-111632200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr3:111604800-111632000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr3:111605000-111629800	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr3:111617600-111631800	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr3:111620000-111643200	Weak transcription	Esophagus	oesophagus
9	chr3:111621800-111632200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr3:111622400-111630400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr3:111622400-111630400	Weak transcription	Pancreas	Pancrea
12	chr3:111622800-111630200	Weak transcription	Fetal Intestine Small	intestine
13	chr3:111623400-111641200	Weak transcription	Lung	lung
14	chr3:111623600-111629800	Weak transcription	Pancreatic Islets	Pancreatic Islet
15	chr3:111623800-111640200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
16	chr3:111624000-111629400	Weak transcription	Colon Smooth Muscle	Colon
17	chr3:111624200-111629400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr3:111624200-111629400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr3:111624200-111629600	Weak transcription	Fetal Brain Male	brain
20	chr3:111624600-111629400	Weak transcription	Rectal Smooth Muscle	rectum
21	chr3:111624600-111632800	Enhancers	Fetal Heart	heart
22	chr3:111624600-111643200	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr3:111625800-111630200	Weak transcription	Right Atrium	heart
24	chr3:111626200-111629600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr3:111626200-111630200	Weak transcription	Fetal Intestine Large	intestine
26	chr3:111626400-111629400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr3:111626400-111630200	Weak transcription	Small Intestine	intestine
28	chr3:111626400-111632200	Weak transcription	HepG2	liver
29	chr3:111626600-111632000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr3:111626800-111630600	Enhancers	Left Ventricle	heart
31	chr3:111627800-111629400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr3:111627800-111629400	Weak transcription	Right Ventricle	heart
33	chr3:111627800-111632000	Weak transcription	Fetal Stomach	stomach
34	chr3:111628000-111629600	Weak transcription	Aorta	Aorta
35	chr3:111628400-111629400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
36	chr3:111628400-111630200	Weak transcription	Fetal Muscle Leg	muscle
37	chr3:111628400-111632200	Weak transcription	Fetal Muscle Trunk	muscle
38	chr3:111628400-111641600	Weak transcription	Spleen	Spleen
39	chr3:111628600-111629400	Weak transcription	Liver	Liver
40	chr3:111628600-111630000	Genic enhancers	NHEK	skin
41	chr3:111628600-111632000	Genic enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr3:111628600-111632200	Enhancers	A549	lung
43	chr3:111628800-111629400	Enhancers	Psoas Muscle	Psoas
44	chr3:111628800-111629400	Enhancers	HSMM	muscle
45	chr3:111628800-111629400	Enhancers	Osteobl	bone
46	chr3:111628800-111630400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
47	chr3:111628800-111630400	Enhancers	HUVEC	blood vessel
48	chr3:111628800-111630600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr3:111628800-111630800	Genic enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
50	chr3:111628800-111631000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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