Variant report

Variant	rs7748918
Chromosome Location	chr6:109613564-109613565
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 64 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs1008084	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1111863	0.88[CEU][hapmap]
rs1111865	0.88[CEU][hapmap]
rs1111866	0.88[CEU][hapmap]
rs11153165	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.88[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs11153166	0.81[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.82[JPT][hapmap];1.00[LWK][hapmap];0.89[YRI][hapmap];0.88[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs11153167	0.81[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs11153168	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.89[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs11751953	0.94[ASN][1000 genomes]
rs11757567	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11961369	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11966072	0.84[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs12664455	0.90[ASN][1000 genomes]
rs13191948	0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13196219	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs13196590	0.84[CEU][hapmap];0.80[GIH][hapmap]
rs13200047	0.88[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];0.85[YRI][hapmap];0.89[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs13203155	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13219432	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13219561	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1341271	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1521908	0.88[CEU][hapmap]
rs1546723	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs351724	0.84[CEU][hapmap]
rs351725	0.84[CEU][hapmap]
rs351728	0.84[CEU][hapmap]
rs4548045	0.85[ASN][1000 genomes]
rs4601178	0.88[CEU][hapmap]
rs5005289	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55677234	0.92[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs59272337	0.92[ASN][1000 genomes]
rs6568569	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6568570	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6568571	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6919423	0.84[CEU][hapmap]
rs6924815	0.88[CEU][hapmap]
rs7772602	0.88[CEU][hapmap]
rs7773490	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs932223	0.84[CEU][hapmap]
rs9374076	0.94[ASN][1000 genomes]
rs9374080	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9374081	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs9386779	0.85[ASN][1000 genomes]
rs9386790	0.88[CEU][hapmap]
rs9386791	0.83[CEU][hapmap]
rs9386795	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9386796	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9400265	0.94[ASN][1000 genomes]
rs9400269	0.88[CEU][hapmap]
rs9400271	0.88[CEU][hapmap]
rs9400272	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.84[LWK][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9400273	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9480921	0.88[CEU][hapmap]
rs9480922	0.88[CEU][hapmap]
rs9480923	0.88[CEU][hapmap]
rs9480924	0.82[CHB][hapmap];1.00[JPT][hapmap];0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9487023	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9487033	0.88[CEU][hapmap]
rs9487034	0.88[CEU][hapmap]
rs9487036	0.83[CEU][hapmap]
rs9487048	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9487049	0.88[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9487051	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9487052	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs7748918	ATG5	cis	cerebellum	SCAN
rs7748918	GNPDA2	trans	cerebellum	SCAN
rs7748918	RAB40AL	trans	parietal	SCAN
rs7748918	CD164	cis	parietal	SCAN

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109587600-109614600	Weak transcription	HepG2	liver
2	chr6:109591600-109615200	Weak transcription	Placenta	Placenta
3	chr6:109606200-109614400	Weak transcription	Primary hematopoietic stem cells	blood
4	chr6:109611200-109615200	Weak transcription	Esophagus	oesophagus
5	chr6:109611200-109618200	Weak transcription	Gastric	stomach
6	chr6:109612000-109613800	Genic enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr6:109612600-109613600	Enhancers	Fetal Muscle Leg	muscle
8	chr6:109612600-109615400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr6:109612600-109615600	Enhancers	Skeletal Muscle Female	skeletal muscle
10	chr6:109612800-109613600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr6:109612800-109614000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr6:109612800-109614200	Enhancers	Stomach Mucosa	stomach
13	chr6:109612800-109614800	Enhancers	Hela-S3	cervix
14	chr6:109612800-109615200	Enhancers	Rectal Mucosa Donor 31	rectum
15	chr6:109613000-109614200	Enhancers	Brain Hippocampus Middle	brain
16	chr6:109613000-109615600	Enhancers	Skeletal Muscle Male	skeletal muscle
17	chr6:109613000-109619000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr6:109613200-109613800	Enhancers	Brain Anterior Caudate	brain
19	chr6:109613200-109614000	Enhancers	HUES6 Cell Line	embryonic stem cell
20	chr6:109613200-109614000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr6:109613200-109614000	Enhancers	Brain Angular Gyrus	brain
22	chr6:109613200-109614000	Enhancers	Brain Inferior Temporal Lobe	brain
23	chr6:109613200-109614000	Enhancers	Brain Substantia Nigra	brain
24	chr6:109613200-109614000	Enhancers	Duodenum Mucosa	Duodenum
25	chr6:109613200-109614000	Enhancers	Pancreas	Pancrea
26	chr6:109613200-109614000	Enhancers	Psoas Muscle	Psoas
27	chr6:109613200-109614200	Enhancers	Brain Cingulate Gyrus	brain
28	chr6:109613200-109614400	Enhancers	K562	blood
29	chr6:109613200-109615600	Enhancers	Left Ventricle	heart
30	chr6:109613200-109619000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr6:109613400-109613800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr6:109613400-109614200	Enhancers	Fetal Intestine Small	intestine
33	chr6:109613400-109614600	Weak transcription	Fetal Heart	heart
34	chr6:109613400-109620200	Weak transcription	Right Atrium	heart

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