Variant report

Variant	rs2045258
Chromosome Location	chr6:126674354-126674355
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:126665887..126667914-chr6:126672669..126674381,2	K562	blood:

Extended variants
information (count: 52 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10457478	1.00[ASN][1000 genomes]
rs1155939	0.87[AFR][1000 genomes]
rs1159619	0.92[CEU][hapmap];1.00[CHB][hapmap];0.94[YRI][hapmap];0.85[AFR][1000 genomes];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12202204	1.00[ASN][1000 genomes]
rs1361108	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1361262	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1490384	0.86[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs1490387	0.86[AFR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1490388	0.86[AFR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1538172	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1538956	0.85[AFR][1000 genomes]
rs1578060	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1591805	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1602278	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17754780	0.90[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];0.83[YRI][hapmap];0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1826189	0.85[AFR][1000 genomes]
rs1907067	0.86[AFR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2027299	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2039735	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2050644	0.92[CEU][hapmap];1.00[CHB][hapmap];0.94[YRI][hapmap];0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2130603	0.86[EUR][1000 genomes]
rs2326387	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34539692	1.00[ASN][1000 genomes]
rs3861455	0.87[AFR][1000 genomes]
rs4053271	0.86[AFR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4243491	0.87[AFR][1000 genomes]
rs4422634	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4626447	0.85[AFR][1000 genomes]
rs4895807	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4895808	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59698523	0.85[EUR][1000 genomes]
rs6907898	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.98[TSI][hapmap];0.94[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6919397	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[GIH][hapmap];0.95[MEX][hapmap];0.98[TSI][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6921183	0.87[AFR][1000 genomes]
rs6925689	0.85[AFR][1000 genomes]
rs7738135	0.85[AFR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9321065	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9375435	0.90[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.97[GIH][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.98[TSI][hapmap];0.83[YRI][hapmap];0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9375442	0.92[CEU][hapmap];1.00[CHB][hapmap];0.87[EUR][1000 genomes]
rs9375446	0.86[AFR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9375447	0.87[AFR][1000 genomes]
rs9388486	0.90[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.85[LWK][hapmap];0.90[MEX][hapmap];0.87[MKK][hapmap];0.98[TSI][hapmap];0.83[YRI][hapmap];0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9388487	0.96[CEU][hapmap];1.00[CHB][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9388489	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9388490	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9388500	0.87[AFR][1000 genomes]
rs9398803	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9398804	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9401876	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9401885	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9401888	0.87[AFR][1000 genomes]
rs9491624	1.00[CHB][hapmap];0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2045258	C6orf174	cis	cerebellum	SCAN
rs2045258	FABP7	cis	cerebellum	SCAN

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:126662200-126675400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr6:126663200-126674800	Weak transcription	NHLF	lung
3	chr6:126663400-126674600	Weak transcription	Primary hematopoietic stem cells	blood
4	chr6:126663600-126678800	Weak transcription	Thymus	Thymus
5	chr6:126663600-126682800	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr6:126663800-126676800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr6:126663800-126677200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr6:126663800-126678400	Weak transcription	Fetal Lung	lung
9	chr6:126663800-126686400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr6:126664000-126676800	Weak transcription	HepG2	liver
11	chr6:126665400-126675800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr6:126665400-126702200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr6:126665400-126702200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr6:126668200-126677800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr6:126671000-126677400	Weak transcription	HUES48 Cell Line	embryonic stem cell
16	chr6:126671400-126676800	Weak transcription	HUES64 Cell Line	embryonic stem cell
17	chr6:126671600-126675400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr6:126671600-126676000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr6:126671600-126679400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
20	chr6:126671600-126679800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr6:126671600-126680600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
22	chr6:126671800-126681000	Weak transcription	Monocytes-CD14+_RO01746	blood
23	chr6:126672600-126675200	Enhancers	HUVEC	blood vessel
24	chr6:126673600-126678000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr6:126674200-126674800	Enhancers	Primary T cells from cord blood	blood
26	chr6:126674200-126677000	Weak transcription	Dnd41	blood

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