Variant report

Variant	rs6834935
Chromosome Location	chr4:149326597-149326598
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10434100	0.93[CEU][hapmap];0.93[GIH][hapmap];0.92[TSI][hapmap];0.84[EUR][1000 genomes]
rs10434128	0.87[CEU][hapmap];0.81[TSI][hapmap]
rs10519963	0.93[CEU][hapmap];0.82[GIH][hapmap];0.92[TSI][hapmap];0.88[EUR][1000 genomes]
rs11931777	0.84[EUR][1000 genomes]
rs11937655	0.94[ASN][1000 genomes]
rs12506058	0.84[EUR][1000 genomes]
rs12510074	0.84[EUR][1000 genomes]
rs1490453	0.81[CEU][hapmap];0.88[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs16998733	1.00[CEU][hapmap];0.92[TSI][hapmap];0.94[EUR][1000 genomes]
rs17024681	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17484783	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17484839	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17484873	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17485033	1.00[CEU][hapmap];0.85[CHB][hapmap];0.89[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs17582031	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2048546	1.00[CEU][hapmap];0.92[TSI][hapmap];0.94[EUR][1000 genomes]
rs2063553	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs2063554	0.84[EUR][1000 genomes]
rs2063555	0.89[ASW][hapmap];0.93[CEU][hapmap];0.87[GIH][hapmap];0.92[TSI][hapmap];0.84[EUR][1000 genomes]
rs2063556	0.84[EUR][1000 genomes]
rs2137330	0.93[CEU][hapmap];0.87[GIH][hapmap];0.92[TSI][hapmap];0.84[EUR][1000 genomes]
rs56721167	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59941204	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61569758	0.88[EUR][1000 genomes]
rs61756947	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61758341	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs61758351	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs61763850	0.95[EUR][1000 genomes]
rs61764769	0.95[EUR][1000 genomes]
rs66584597	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6840422	1.00[CEU][hapmap];1.00[GIH][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs72729936	0.84[EUR][1000 genomes]
rs72729950	0.80[EUR][1000 genomes]
rs72729990	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72729992	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72732304	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs72732308	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs72732311	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs72953910	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7682972	0.94[EUR][1000 genomes]
rs7686433	0.93[CEU][hapmap];0.88[EUR][1000 genomes]
rs7688969	0.80[CEU][hapmap];0.82[CHB][hapmap];0.94[ASN][1000 genomes]
rs7698307	1.00[CEU][hapmap];1.00[GIH][hapmap];0.96[TSI][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs879206	0.81[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1016966	chr4:149209467-149341037	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv530433	chr4:149277637-149669181	Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6834935	FCRL1	trans	cerebellum	SCAN

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:149297800-149350000	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr4:149299000-149329000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr4:149307600-149336600	Weak transcription	Aorta	Aorta
4	chr4:149312800-149338800	Weak transcription	Brain Hippocampus Middle	brain
5	chr4:149318600-149327400	Weak transcription	Stomach Smooth Muscle	stomach
6	chr4:149318800-149346600	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr4:149319000-149339000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
8	chr4:149319200-149327200	Weak transcription	Fetal Stomach	stomach
9	chr4:149319200-149335000	Weak transcription	Esophagus	oesophagus
10	chr4:149319200-149339200	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr4:149319400-149334600	Weak transcription	Primary T helper cells fromperipheralblood	blood
12	chr4:149320400-149351800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr4:149321400-149328000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
14	chr4:149325600-149328400	Enhancers	Liver	Liver
15	chr4:149325800-149338600	Weak transcription	Brain Angular Gyrus	brain
16	chr4:149326200-149327000	Strong transcription	Rectal Mucosa Donor 31	rectum
17	chr4:149326400-149326600	Flanking Active TSS	Stomach Mucosa	stomach
18	chr4:149326400-149326800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
19	chr4:149326400-149327000	Enhancers	Skeletal Muscle Female	skeletal muscle
20	chr4:149326400-149327200	Enhancers	Fetal Heart	heart
21	chr4:149326400-149327200	Enhancers	Fetal Intestine Small	intestine
22	chr4:149326400-149327200	Enhancers	Gastric	stomach
23	chr4:149326400-149327200	Enhancers	Ovary	ovary
24	chr4:149326400-149327200	Enhancers	Psoas Muscle	Psoas
25	chr4:149326400-149327200	Enhancers	Right Atrium	heart
26	chr4:149326400-149327200	Enhancers	Right Ventricle	heart
27	chr4:149326400-149327400	Enhancers	Fetal Intestine Large	intestine
28	chr4:149326400-149327400	Enhancers	Left Ventricle	heart
29	chr4:149326400-149327800	Enhancers	Duodenum Mucosa	Duodenum
30	chr4:149326400-149327800	Enhancers	Pancreas	Pancrea

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