Variant report

Variant	rs4714187
Chromosome Location	chr6:12098606-12098607
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:12008090..12009710-chr6:12098380..12101089,2	K562	blood:
2	chr6:12097856..12101998-chr6:12102084..12105151,4	K562	blood:
3	chr6:12097092..12098782-chr6:12100480..12103013,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C6orf105-6	chr6:12098562-12098739	NONHSAT107777
2	lnc-C6orf105-6	chr6:12098561-12098739	l_3115_chr6:12098560-12109439_testes

Variant related genes	Relation type
ENSG00000095951	Chromatin interaction
ENSG00000229896	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs12662314	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12663812	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12664373	0.80[JPT][hapmap]
rs12664849	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16872348	0.87[ASN][1000 genomes]
rs2157492	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2228211	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2327512	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28769650	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3777756	0.91[ASN][1000 genomes]
rs3777757	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3777764	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3777767	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3777772	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3777774	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3777777	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3800499	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4317394	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4443504	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4484521	1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs55637995	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6910367	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6917623	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6931770	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72828103	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72828104	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72828110	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7449638	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7741589	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7747677	0.82[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs9380769	0.94[CEU][hapmap];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv870443	chr6:12096356-12125998	Weak transcription Genic enhancers Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:69 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:12061600-12105200	Weak transcription	Duodenum Mucosa	Duodenum
2	chr6:12061600-12109600	Weak transcription	HUES6 Cell Line	embryonic stem cell
3	chr6:12066400-12103600	Weak transcription	Pancreas	Pancrea
4	chr6:12066400-12107600	Weak transcription	Fetal Muscle Leg	muscle
5	chr6:12066800-12109600	Weak transcription	Skeletal Muscle Male	skeletal muscle
6	chr6:12070800-12120400	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr6:12071800-12120400	Weak transcription	HepG2	liver
8	chr6:12077800-12113400	Weak transcription	HMEC	breast
9	chr6:12078000-12109800	Weak transcription	Fetal Muscle Trunk	muscle
10	chr6:12079200-12103600	Weak transcription	Fetal Intestine Large	intestine
11	chr6:12079400-12104600	Weak transcription	Fetal Intestine Small	intestine
12	chr6:12081800-12109800	Weak transcription	Aorta	Aorta
13	chr6:12082200-12111400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr6:12082200-12111400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr6:12082200-12112800	Weak transcription	Spleen	Spleen
16	chr6:12084600-12109600	Weak transcription	Primary B cells from peripheral blood	blood
17	chr6:12084800-12116600	Weak transcription	HSMMtube	muscle
18	chr6:12085800-12104000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
19	chr6:12086000-12107600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr6:12086000-12109600	Weak transcription	H1 Cell Line	embryonic stem cell
21	chr6:12086000-12113200	Weak transcription	Ovary	ovary
22	chr6:12088600-12111000	Weak transcription	HUES48 Cell Line	embryonic stem cell
23	chr6:12088800-12111400	Weak transcription	Left Ventricle	heart
24	chr6:12090800-12109600	Weak transcription	Primary B cells from cord blood	blood
25	chr6:12091000-12103400	Weak transcription	Right Atrium	heart
26	chr6:12091000-12109600	Weak transcription	Rectal Mucosa Donor 29	rectum
27	chr6:12091000-12109600	Weak transcription	HUVEC	blood vessel
28	chr6:12091000-12118800	Weak transcription	A549	lung
29	chr6:12091000-12130600	Weak transcription	Psoas Muscle	Psoas
30	chr6:12091200-12107400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr6:12091200-12111000	Weak transcription	Duodenum Smooth Muscle	Duodenum
32	chr6:12091200-12111800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
33	chr6:12093000-12109600	Weak transcription	HUES64 Cell Line	embryonic stem cell
34	chr6:12093200-12101000	Weak transcription	Primary T cells from cord blood	blood
35	chr6:12093200-12109600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
36	chr6:12093200-12109800	Weak transcription	Fetal Thymus	thymus
37	chr6:12093400-12100400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr6:12093400-12102000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
39	chr6:12093400-12102000	Weak transcription	K562	blood
40	chr6:12093400-12109600	Weak transcription	HSMM	muscle
41	chr6:12093400-12109800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
42	chr6:12093400-12110800	Weak transcription	Primary hematopoietic stem cells	blood
43	chr6:12093600-12102000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr6:12094000-12099800	Weak transcription	Fetal Lung	lung
45	chr6:12095600-12099200	Weak transcription	GM12878-XiMat	blood
46	chr6:12095600-12100400	Weak transcription	Primary T helper cells fromperipheralblood	blood
47	chr6:12095600-12100800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
48	chr6:12095600-12101400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
49	chr6:12095600-12119200	Weak transcription	Rectal Mucosa Donor 31	rectum
50	chr6:12095800-12105400	Weak transcription	Liver	Liver

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