Variant report

Variant	rs2776910
Chromosome Location	chr6:37436284-37436285
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:37427968..37429598-chr6:37435219..37438216,2	K562	blood:
2	chr6:37435201..37437233-chr6:37461003..37462712,2	K562	blood:
3	chr6:37400814..37402924-chr6:37435282..37437771,3	K562	blood:

Variant related genes	Relation type
ENSG00000137200	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10692	0.88[CEU][hapmap];0.91[CHB][hapmap];0.93[CHD][hapmap];0.84[GIH][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs11756941	0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.94[MEX][hapmap];0.96[TSI][hapmap];0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs12212090	0.90[ASN][1000 genomes]
rs1224127	0.86[ASN][1000 genomes]
rs1224128	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1224129	0.82[ASN][1000 genomes]
rs1812186	0.90[ASN][1000 genomes]
rs2252920	0.86[CEU][hapmap];0.89[CHB][hapmap];0.89[JPT][hapmap];0.86[ASN][1000 genomes]
rs2254710	0.80[AMR][1000 genomes]
rs2646926	0.86[ASN][1000 genomes]
rs2646933	0.88[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs2646934	1.00[ASW][hapmap];0.96[CEU][hapmap];0.82[CHB][hapmap];0.82[CHD][hapmap];0.83[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2776881	0.83[CEU][hapmap];0.83[JPT][hapmap]
rs2776906	0.88[CEU][hapmap];0.91[CHB][hapmap];0.93[CHD][hapmap];0.84[GIH][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs2776908	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2776911	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2776916	0.92[ASN][1000 genomes]
rs2776918	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2797790	0.81[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];0.82[GIH][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs4257849	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62406516	0.97[ASN][1000 genomes]
rs756202	0.88[CEU][hapmap];0.91[CHB][hapmap];0.93[CHD][hapmap];0.84[GIH][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs883372	0.83[AMR][1000 genomes]
rs904251	0.91[CHB][hapmap];0.91[CHD][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs931649	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][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	esv2752124	chr6:37416219-37680622	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs2776910	RP1-153P14.8	cis	Whole Blood	GTEx
rs2776910	FTSJD2	cis	parietal	SCAN
rs2776910	C6orf129	cis	parietal	SCAN
rs2776910	RP1-153P14.5	cis	Whole Blood	GTEx

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:37411400-37437200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
2	chr6:37411600-37436400	Strong transcription	Monocytes-CD14+_RO01746	blood
3	chr6:37424600-37451600	Strong transcription	Fetal Thymus	thymus
4	chr6:37425600-37440200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr6:37427400-37442800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr6:37428800-37440800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr6:37429000-37439800	Weak transcription	Fetal Heart	heart
8	chr6:37430000-37439600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr6:37430400-37438600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
10	chr6:37430800-37439000	Weak transcription	Fetal Kidney	kidney
11	chr6:37430800-37442200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr6:37431000-37438600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
13	chr6:37431000-37438600	Weak transcription	HUVEC	blood vessel
14	chr6:37431000-37438800	Weak transcription	HMEC	breast
15	chr6:37431000-37439000	Weak transcription	HSMMtube	muscle
16	chr6:37431000-37440000	Weak transcription	Fetal Brain Male	brain
17	chr6:37431200-37437600	Weak transcription	HSMM	muscle
18	chr6:37431200-37438400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
19	chr6:37431200-37438600	Weak transcription	H9 Cell Line	embryonic stem cell
20	chr6:37431200-37438800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
21	chr6:37431200-37439000	Weak transcription	Small Intestine	intestine
22	chr6:37431200-37439200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr6:37431200-37440000	Weak transcription	H1 Cell Line	embryonic stem cell
24	chr6:37431400-37437600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
25	chr6:37431400-37438200	Weak transcription	Rectal Mucosa Donor 29	rectum
26	chr6:37431400-37438400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
27	chr6:37431400-37438800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr6:37431400-37439400	Weak transcription	NHLF	lung
29	chr6:37431600-37438400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
30	chr6:37431600-37438400	Weak transcription	Rectal Smooth Muscle	rectum
31	chr6:37431600-37438800	Weak transcription	HUES48 Cell Line	embryonic stem cell
32	chr6:37431600-37439200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
33	chr6:37431600-37439200	Weak transcription	Placenta Amnion	Placenta Amnion
34	chr6:37431600-37439600	Weak transcription	A549	lung
35	chr6:37431600-37440000	Weak transcription	NHDF-Ad	bronchial
36	chr6:37431600-37440400	Weak transcription	Psoas Muscle	Psoas
37	chr6:37431800-37438200	Weak transcription	Sigmoid Colon	Sigmoid Colon
38	chr6:37431800-37438400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
39	chr6:37431800-37438400	Weak transcription	Aorta	Aorta
40	chr6:37431800-37438400	Weak transcription	Colonic Mucosa	Colon
41	chr6:37431800-37438400	Weak transcription	Rectal Mucosa Donor 31	rectum
42	chr6:37431800-37438400	Weak transcription	Osteobl	bone
43	chr6:37431800-37438600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr6:37431800-37438600	Weak transcription	Brain Cingulate Gyrus	brain
45	chr6:37431800-37438600	Weak transcription	Left Ventricle	heart
46	chr6:37431800-37438600	Weak transcription	Lung	lung
47	chr6:37431800-37438600	Weak transcription	Stomach Smooth Muscle	stomach
48	chr6:37431800-37439000	Weak transcription	HUES6 Cell Line	embryonic stem cell
49	chr6:37431800-37439000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
50	chr6:37431800-37439000	Weak transcription	Brain Angular Gyrus	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links