Variant report

Variant	rs11755449
Chromosome Location	chr6:74226353-74226354
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:27)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:27 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:74221323..74236726-chr6:74306065..74338770,101	K562	blood:
2	chr6:74225322..74227120-chr6:74304460..74305982,2	K562	blood:
3	chr6:74219718..74234750-chr6:74354945..74369231,56	K562	blood:
4	6:74062967-74076046..6:74225478-74226762	GM12878	blood:
5	chr6:74220976..74234980-chr6:74352572..74366941,62	K562	blood:
6	chr11:8835559..8836309-chr6:74226294..74227037,2	Hela-S3	cervix:
7	chr6:74212439..74215009-chr6:74224269..74226857,3	K562	blood:
8	chr17:19551466..19552007-chr6:74225843..74226454,2	Hela-S3	cervix:
9	chr6:74136453..74139092-chr6:74226309..74227871,2	K562	blood:
10	chr6:74225345..74228338-chr6:74268407..74270549,2	K562	blood:
11	chr6:74224731..74227421-chr6:74361806..74363965,4	MCF-7	breast:
12	chr19:42721030..42721534-chr6:74226064..74226809,2	HCT-116	colon:
13	chr6:74169658..74172596-chr6:74225769..74229058,3	MCF-7	breast:
14	6:74160392-74184826..6:74225478-74226762	GM12878	blood:
15	chr6:74222886..74227431-chr6:74328724..74331054,7	K562	blood:
16	chr6:74209113..74211687-chr6:74224027..74227100,3	MCF-7	breast:
17	6:74078047-74099067..6:74225478-74226762	H1-hESC	embryonic stem cell:	embryo
18	chr6:74225495..74228323-chr6:74275867..74278333,2	MCF-7	breast:
19	chr6:74171683..74173790-chr6:74225512..74227822,2	MCF-7	breast:
20	chr6:74225553..74226354-chr8:90914190..90914714,2	Hela-S3	cervix:
21	chr6:74225719..74228474-chr6:74264854..74267464,2	K562	blood:
22	chr6:74224257..74227085-chr6:74333037..74337394,5	K562	blood:
23	6:74099986-74112890..6:74225478-74226762	GM12878	blood:
24	chr6:74222064..74227666-chr6:74315829..74323019,13	MCF-7	breast:
25	chr6:74223088..74226507-chr6:74303403..74307438,4	K562	blood:
26	chr6:74225295..74227678-chr6:74405377..74406988,2	MCF-7	breast:
27	chr6:74207658..74210612-chr6:74224071..74227518,3	K562	blood:

(count:1 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MB21D1-3	chr6:74225475-74227579	NONHSAT113566

No data

Variant related genes	Relation type
ENSG00000072210	Chromatin interaction
ENSG00000235174	Chromatin interaction
ENSG00000238464	Chromatin interaction
ENSG00000218459	Chromatin interaction
ENSG00000203907	Chromatin interaction
ENSG00000119899	Chromatin interaction
ENSG00000156535	Chromatin interaction
ENSG00000203908	Chromatin interaction
ENSG00000135297	Chromatin interaction
ENSG00000207023	Chromatin interaction
ENSG00000080007	Chromatin interaction
ENSG00000203909	Chromatin interaction
ENSG00000231652	Chromatin interaction
ENSG00000224221	Chromatin interaction
ENSG00000231332	Chromatin interaction
ENSG00000164430	Chromatin interaction

Extended variants
information (count: 48 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10943096	0.80[ASN][1000 genomes]
rs11754214	0.84[ASN][1000 genomes]
rs11754630	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11756187	0.86[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs11756242	0.86[CHB][hapmap];0.86[JPT][hapmap]
rs11756668	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11757033	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs11760131	0.91[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes]
rs12524548	0.80[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs12525146	0.85[AMR][1000 genomes]
rs12526457	0.86[AFR][1000 genomes]
rs12526483	0.86[AFR][1000 genomes]
rs12526844	1.00[ASW][hapmap];0.86[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs12527011	0.86[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs12529857	0.86[CHB][hapmap];0.86[JPT][hapmap]
rs1390082	0.81[CHB][hapmap]
rs17757139	0.84[CEU][hapmap];0.93[CHB][hapmap];0.85[JPT][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2073465	0.87[CEU][hapmap];1.00[CHB][hapmap];0.81[CHD][hapmap];0.91[GIH][hapmap];0.85[JPT][hapmap];0.85[MEX][hapmap];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3806981	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4440422	0.86[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs4706541	0.92[CHB][hapmap];0.83[JPT][hapmap]
rs4708059	0.86[CHB][hapmap];0.86[JPT][hapmap];0.80[ASN][1000 genomes]
rs62438385	0.80[ASN][1000 genomes]
rs62438400	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs62438403	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs62440625	0.83[EUR][1000 genomes]
rs62440626	0.80[EUR][1000 genomes]
rs6908789	0.86[CHB][hapmap];0.86[JPT][hapmap];0.80[ASN][1000 genomes]
rs6917933	1.00[ASW][hapmap]
rs6920811	0.86[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs6925541	0.86[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs73452507	0.80[ASN][1000 genomes]
rs7453831	0.85[CHB][hapmap];0.86[JPT][hapmap]
rs7754947	0.86[CHB][hapmap];0.86[JPT][hapmap];0.80[ASN][1000 genomes]
rs7765670	0.90[ASN][1000 genomes]
rs9352005	0.81[CHB][hapmap]
rs9446906	0.83[EUR][1000 genomes]
rs9446917	0.81[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3410973	chr6:73716033-74419545	Active TSS Bivalent Enhancer Flanking Active TSS Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	191 gene(s)	inside rSNPs	diseases
2	nsv886158	chr6:74126084-74436825	Weak transcription Active TSS Strong transcription Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	179 gene(s)	inside rSNPs	diseases
3	nsv1027968	chr6:74155378-74521923	Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Weak transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	178 gene(s)	inside rSNPs	diseases
4	nsv538305	chr6:74155378-74521923	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	178 gene(s)	inside rSNPs	diseases
5	nsv1017716	chr6:74173173-74401162	Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	170 gene(s)	inside rSNPs	diseases
6	nsv1023250	chr6:74189642-74605976	Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	172 gene(s)	inside rSNPs	diseases
7	nsv538306	chr6:74189642-74605976	Strong transcription Enhancers Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	172 gene(s)	inside rSNPs	diseases
8	esv2763576	chr6:74197638-74277249	Strong transcription Flanking Active TSS Enhancers Active TSS Weak transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	160 gene(s)	inside rSNPs	diseases
9	nsv5350	chr6:74221995-74267088	Active TSS Flanking Active TSS Genic enhancers Strong transcription Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	159 gene(s)	inside rSNPs	diseases
10	nsv886159	chr6:74223153-74275405	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	159 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs11755449	EEF1A1	cis	cerebellum	SCAN
rs11755449	EEF1A1	cis	parietal	SCAN
rs11755449	C6orf221	cis	cerebellum	SCAN
rs11755449	MTO1	cis	Whole Blood	GTEx

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:74172200-74229200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr6:74187600-74228400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr6:74208400-74226400	Weak transcription	Ovary	ovary
4	chr6:74214000-74228000	Weak transcription	Right Ventricle	heart
5	chr6:74222800-74226400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr6:74224200-74226400	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr6:74224200-74228000	Strong transcription	Left Ventricle	heart
8	chr6:74224200-74228600	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
9	chr6:74224200-74229000	Genic enhancers	Primary T cells fromperipheralblood	blood
10	chr6:74224200-74229000	Genic enhancers	Primary T helper cells fromperipheralblood	blood
11	chr6:74224200-74229200	Genic enhancers	Primary B cells from peripheral blood	blood
12	chr6:74224400-74227000	Strong transcription	Placenta	Placenta
13	chr6:74224400-74228400	Genic enhancers	Primary monocytes fromperipheralblood	blood
14	chr6:74224400-74228400	Strong transcription	Fetal Muscle Trunk	muscle
15	chr6:74224600-74226400	Strong transcription	HUES64 Cell Line	embryonic stem cell
16	chr6:74224600-74226400	Strong transcription	Primary hematopoietic stem cells	blood
17	chr6:74224600-74226400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
18	chr6:74224600-74226400	Strong transcription	NHEK	skin
19	chr6:74224600-74226600	Enhancers	Fetal Heart	heart
20	chr6:74224600-74226800	Genic enhancers	Brain Hippocampus Middle	brain
21	chr6:74224600-74226800	Genic enhancers	Fetal Intestine Small	intestine
22	chr6:74224600-74226800	Strong transcription	HSMM	muscle
23	chr6:74224600-74227200	Transcr. at gene 5' and 3'	Breast Myoepithelial Primary Cells	Breast
24	chr6:74224600-74227200	Strong transcription	Lung	lung
25	chr6:74224600-74227200	Transcr. at gene 5' and 3'	GM12878-XiMat	blood
26	chr6:74224600-74227400	Genic enhancers	Primary T helper memory cells from peripheral blood 2	blood
27	chr6:74224600-74227800	Genic enhancers	Fetal Adrenal Gland	Adrenal Gland
28	chr6:74224600-74228000	Genic enhancers	Colon Smooth Muscle	Colon
29	chr6:74224600-74228400	Genic enhancers	Primary T helper naive cells fromperipheralblood	blood
30	chr6:74224600-74228400	Genic enhancers	Primary T helper memory cells from peripheral blood 1	blood
31	chr6:74224600-74229000	Genic enhancers	Primary B cells from cord blood	blood
32	chr6:74224600-74229000	Genic enhancers	Primary T helper naive cells from peripheral blood	blood
33	chr6:74224600-74230600	Transcr. at gene 5' and 3'	Primary T helper cells PMA-I stimulated	--
34	chr6:74224800-74226400	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
35	chr6:74224800-74226400	Strong transcription	HUES48 Cell Line	embryonic stem cell
36	chr6:74224800-74226400	Strong transcription	HMEC	breast
37	chr6:74224800-74226800	Strong transcription	HUES6 Cell Line	embryonic stem cell
38	chr6:74224800-74226800	Strong transcription	Fetal Stomach	stomach
39	chr6:74224800-74227200	Genic enhancers	Primary T killer naive cells fromperipheralblood	blood
40	chr6:74224800-74228400	Genic enhancers	Stomach Smooth Muscle	stomach
41	chr6:74224800-74229000	Genic enhancers	Primary T killer memory cells from peripheral blood	blood
42	chr6:74224800-74230600	Transcr. at gene 5' and 3'	A549	lung
43	chr6:74225000-74226400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr6:74225000-74226400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
45	chr6:74225000-74226400	Strong transcription	HSMMtube	muscle
46	chr6:74225000-74226800	Strong transcription	H9 Cell Line	embryonic stem cell
47	chr6:74225000-74227000	Genic enhancers	Sigmoid Colon	Sigmoid Colon
48	chr6:74225000-74227200	Genic enhancers	Brain Inferior Temporal Lobe	brain
49	chr6:74225000-74227200	Transcr. at gene 5' and 3'	NHLF	lung
50	chr6:74225000-74228200	Strong transcription	iPS DF 6.9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links