Variant report

Variant	rs1177749
Chromosome Location	chr10:97897991-97897992
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:97897324..97899948-chr10:97903949..97905889,2	MCF-7	breast:
2	chr10:97890235..97891778-chr10:97897120..97899375,2	MCF-7	breast:
3	chr10:97887805..97893654-chr10:97893672..97904604,20	MCF-7	breast:

Variant related genes	Relation type
ENSG00000177853	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10128368	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1023331	0.83[CEU][hapmap]
rs1029215	0.89[ASW][hapmap];0.95[LWK][hapmap];0.90[MEX][hapmap];0.82[TSI][hapmap];0.91[YRI][hapmap];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10509704	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10509706	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10732776	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10748659	0.80[CEU][hapmap]
rs10748660	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10882731	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10882732	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10882742	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11188564	0.85[JPT][hapmap]
rs11188574	0.85[JPT][hapmap]
rs11188633	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11188634	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11188642	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11188643	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11188655	0.82[EUR][1000 genomes]
rs11188660	0.80[AFR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1172937	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1172940	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1172943	0.84[CEU][hapmap];0.86[MEX][hapmap];0.85[EUR][1000 genomes]
rs1172946	0.85[EUR][1000 genomes]
rs1172958	1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1172960	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1172961	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1172963	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12766762	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12782206	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1414919	0.89[ASW][hapmap];0.84[CEU][hapmap];0.96[LWK][hapmap];0.90[MEX][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs17111316	0.85[JPT][hapmap]
rs1764305	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2446023	0.88[CEU][hapmap];0.90[TSI][hapmap];0.88[EUR][1000 genomes]
rs2484912	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs3748226	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3762090	1.00[ASW][hapmap];0.92[CEU][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7084542	1.00[ASW][hapmap];0.88[CEU][hapmap];0.96[LWK][hapmap];0.90[MEX][hapmap];0.82[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9783259	0.80[JPT][hapmap]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs1177749	CRTAC1	cis	parietal	SCAN
rs1177749	MYOF	cis	parietal	SCAN
rs1177749	GPR120	cis	cerebellum	SCAN

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:97890600-97911200	Weak transcription	Gastric	stomach
2	chr10:97890600-97911200	Weak transcription	Spleen	Spleen
3	chr10:97890600-97912800	Weak transcription	Esophagus	oesophagus
4	chr10:97890800-97912800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr10:97890800-97917200	Weak transcription	Small Intestine	intestine
6	chr10:97890800-97922400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr10:97891000-97906400	Weak transcription	Right Ventricle	heart
8	chr10:97891000-97906600	Weak transcription	Psoas Muscle	Psoas
9	chr10:97891000-97913400	Weak transcription	Brain Germinal Matrix	brain
10	chr10:97891000-97914000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr10:97891000-97927000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr10:97891200-97911000	Weak transcription	HSMMtube	muscle
13	chr10:97891200-97911400	Weak transcription	Fetal Brain Male	brain
14	chr10:97891400-97911000	Weak transcription	Brain Anterior Caudate	brain
15	chr10:97891400-97916400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
16	chr10:97891400-97918200	Weak transcription	NHLF	lung
17	chr10:97891600-97911200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr10:97891600-97913400	Weak transcription	Fetal Heart	heart
19	chr10:97891800-97921400	Weak transcription	Stomach Mucosa	stomach
20	chr10:97892000-97912200	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr10:97892400-97898600	Strong transcription	HUES48 Cell Line	embryonic stem cell
22	chr10:97892400-97901400	Strong transcription	Primary monocytes fromperipheralblood	blood
23	chr10:97892400-97909600	Strong transcription	Primary B cells from peripheral blood	blood
24	chr10:97892400-97924800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr10:97892600-97898200	Strong transcription	HUES64 Cell Line	embryonic stem cell
26	chr10:97892600-97907800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
27	chr10:97892600-97909800	Strong transcription	Liver	Liver
28	chr10:97892800-97898400	Strong transcription	Rectal Mucosa Donor 29	rectum
29	chr10:97892800-97907800	Strong transcription	Duodenum Mucosa	Duodenum
30	chr10:97892800-97909400	Strong transcription	Primary neutrophils fromperipheralblood	blood
31	chr10:97892800-97924200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr10:97893000-97898000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
33	chr10:97893000-97898000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr10:97893000-97898200	Strong transcription	Stomach Smooth Muscle	stomach
35	chr10:97893000-97898400	Strong transcription	K562	blood
36	chr10:97893000-97900000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
37	chr10:97893000-97902000	Strong transcription	Monocytes-CD14+_RO01746	blood
38	chr10:97893000-97903600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr10:97893000-97904000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
40	chr10:97893000-97904000	Strong transcription	Fetal Muscle Leg	muscle
41	chr10:97893000-97907200	Strong transcription	Rectal Mucosa Donor 31	rectum
42	chr10:97893000-97907400	Strong transcription	Primary T helper cells fromperipheralblood	blood
43	chr10:97893000-97907600	Strong transcription	HUES6 Cell Line	embryonic stem cell
44	chr10:97893000-97907600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr10:97893000-97907800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
46	chr10:97893000-97907800	Strong transcription	Primary B cells from cord blood	blood
47	chr10:97893000-97908400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
48	chr10:97893000-97909400	Strong transcription	Fetal Intestine Large	intestine
49	chr10:97893000-97909800	Strong transcription	Primary T cells fromperipheralblood	blood
50	chr10:97893200-97898000	Strong transcription	HSMM	muscle

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