Variant report

Variant	rs34173240
Chromosome Location	chr4:54294606-54294607
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 53 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10012853	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10013573	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10028214	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1014056	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10517296	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11133267	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11935822	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11942086	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11946199	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12499401	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12501431	0.80[EUR][1000 genomes]
rs12507723	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13120051	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13125807	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13130836	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1351514	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17082659	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17082910	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2128103	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2170421	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2271555	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2271557	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2292579	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34028346	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34317954	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35033239	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35089532	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35225781	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35313782	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs36090882	0.80[ASN][1000 genomes]
rs3817270	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3946758	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3986364	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6420001	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6554095	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6554096	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6554102	0.90[ASN][1000 genomes]
rs6554103	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6554107	0.83[EUR][1000 genomes]
rs6554108	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6846569	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6847289	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71597836	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7678953	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7679743	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7684450	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7684894	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7694840	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs980988	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs997832	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9992820	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9997358	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9997844	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs34173240	SCFD2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:54244600-54310600	Weak transcription	Spleen	Spleen
2	chr4:54244600-54319200	Weak transcription	Pancreas	Pancrea
3	chr4:54246200-54319200	Weak transcription	Aorta	Aorta
4	chr4:54246600-54311200	Weak transcription	Small Intestine	intestine
5	chr4:54253400-54327200	Weak transcription	Colonic Mucosa	Colon
6	chr4:54256600-54306200	Weak transcription	Stomach Mucosa	stomach
7	chr4:54256600-54319200	Weak transcription	Gastric	stomach
8	chr4:54257600-54296000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr4:54263800-54295000	Weak transcription	Placenta Amnion	Placenta Amnion
10	chr4:54264400-54294800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
11	chr4:54267800-54302400	Weak transcription	Psoas Muscle	Psoas
12	chr4:54268000-54295000	Weak transcription	Fetal Brain Male	brain
13	chr4:54268000-54310400	Weak transcription	Rectal Smooth Muscle	rectum
14	chr4:54268000-54327600	Weak transcription	Colon Smooth Muscle	Colon
15	chr4:54268400-54319800	Weak transcription	A549	lung
16	chr4:54269400-54294800	Weak transcription	Muscle Satellite Cultured Cells	--
17	chr4:54269400-54303000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr4:54269600-54295000	Weak transcription	HMEC	breast
19	chr4:54270000-54330800	Weak transcription	Brain Substantia Nigra	brain
20	chr4:54270200-54295200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
21	chr4:54270200-54295400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr4:54270200-54316600	Weak transcription	Esophagus	oesophagus
23	chr4:54276400-54319000	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr4:54276600-54295000	Weak transcription	Thymus	Thymus
25	chr4:54276600-54295200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
26	chr4:54276600-54297000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
27	chr4:54276600-54302200	Weak transcription	Fetal Brain Female	brain
28	chr4:54276600-54319000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr4:54276600-54319000	Weak transcription	Lung	lung
30	chr4:54276800-54310600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
31	chr4:54276800-54316800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
32	chr4:54276800-54324800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr4:54277800-54296600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
34	chr4:54281000-54295000	Weak transcription	Ovary	ovary
35	chr4:54281600-54294800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
36	chr4:54281800-54295000	Weak transcription	K562	blood
37	chr4:54283000-54296200	Weak transcription	Brain Germinal Matrix	brain
38	chr4:54286200-54296000	Weak transcription	Fetal Intestine Small	intestine
39	chr4:54286200-54303000	Weak transcription	Fetal Stomach	stomach
40	chr4:54286200-54310800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
41	chr4:54286200-54316600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
42	chr4:54287800-54310400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
43	chr4:54288000-54295200	Weak transcription	Brain Anterior Caudate	brain
44	chr4:54288200-54295000	Weak transcription	Brain Angular Gyrus	brain
45	chr4:54288200-54307600	Weak transcription	Pancreatic Islets	Pancreatic Islet
46	chr4:54288200-54310800	Weak transcription	Brain Hippocampus Middle	brain
47	chr4:54290400-54296600	Strong transcription	Dnd41	blood
48	chr4:54291000-54300000	Strong transcription	HUES64 Cell Line	embryonic stem cell
49	chr4:54291000-54310600	Weak transcription	Right Ventricle	heart
50	chr4:54291200-54294800	Weak transcription	Brain Inferior Temporal Lobe	brain

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