Variant report

Variant	rs73148486
Chromosome Location	chr7:66808059-66808060
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:66806712..66809740-chr7:66809964..66812550,3	K562	blood:
2	chr7:66805244..66806812-chr7:66806851..66808891,2	MCF-7	breast:
3	chr7:66805031..66806726-chr7:66806842..66808833,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-STAG3L4-1	chr7:66807824-66808421	NONHSAT121283

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10085684	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10227991	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10242530	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10278852	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10280504	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11975662	0.95[ASN][1000 genomes]
rs12673116	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12698580	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13438181	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2075082	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28540856	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28542443	0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28718590	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34349239	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4521652	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6460339	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6945404	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6957404	0.90[ASN][1000 genomes]
rs6957846	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73135830	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73148449	0.86[AFR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73148464	1.00[AFR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73150465	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73150492	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73150498	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73152206	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7779003	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7789199	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9654869	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758118	chr7:66401430-66859253	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	esv2759535	chr7:66401430-66859253	Weak transcription Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
3	nsv888330	chr7:66502171-66877880	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	39 gene(s)	inside rSNPs	diseases
4	nsv1027702	chr7:66722103-66841913	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
5	nsv1031048	chr7:66722103-66844039	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
6	nsv966839	chr7:66805198-66815088	Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv1031560	chr7:66805244-66846663	Enhancers Strong transcription Bivalent Enhancer Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv1022779	chr7:66805244-66849392	Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:82 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:66778800-66809000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr7:66780400-66808200	Weak transcription	GM12878-XiMat	blood
3	chr7:66780400-66809400	Weak transcription	A549	lung
4	chr7:66781400-66810200	Weak transcription	Rectal Smooth Muscle	rectum
5	chr7:66782800-66809400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr7:66785800-66808200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr7:66785800-66816200	Weak transcription	Primary T helper cells fromperipheralblood	blood
8	chr7:66786000-66809400	Weak transcription	Dnd41	blood
9	chr7:66786200-66809400	Weak transcription	Monocytes-CD14+_RO01746	blood
10	chr7:66786800-66809400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr7:66799400-66808200	Weak transcription	Fetal Lung	lung
12	chr7:66800000-66808400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr7:66801000-66808600	Weak transcription	Aorta	Aorta
14	chr7:66801000-66809200	Weak transcription	Esophagus	oesophagus
15	chr7:66801200-66812000	Weak transcription	Gastric	stomach
16	chr7:66802000-66809000	Weak transcription	NHEK	skin
17	chr7:66802400-66808200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr7:66802400-66808600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr7:66802600-66809600	Weak transcription	Primary hematopoietic stem cells	blood
20	chr7:66802600-66811800	Weak transcription	Stomach Mucosa	stomach
21	chr7:66802800-66814800	Weak transcription	HSMMtube	muscle
22	chr7:66803200-66811600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
23	chr7:66803400-66809000	Weak transcription	Colon Smooth Muscle	Colon
24	chr7:66804400-66809800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
25	chr7:66804400-66810000	Strong transcription	Rectal Mucosa Donor 31	rectum
26	chr7:66804400-66810200	Strong transcription	Fetal Intestine Large	intestine
27	chr7:66804600-66809800	Transcr. at gene 5' and 3'	Skeletal Muscle Male	skeletal muscle
28	chr7:66804600-66810400	Strong transcription	Primary T cells from cord blood	blood
29	chr7:66804600-66811200	Strong transcription	Duodenum Mucosa	Duodenum
30	chr7:66804800-66809400	Strong transcription	Stomach Smooth Muscle	stomach
31	chr7:66804800-66809600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr7:66805200-66808400	Weak transcription	Lung	lung
33	chr7:66805200-66808600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
34	chr7:66805200-66808600	Weak transcription	Fetal Brain Female	brain
35	chr7:66805200-66808600	Weak transcription	Spleen	Spleen
36	chr7:66805200-66808800	Weak transcription	Psoas Muscle	Psoas
37	chr7:66805200-66809200	Weak transcription	Liver	Liver
38	chr7:66805200-66809600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr7:66805200-66816200	Weak transcription	Primary T helper cells PMA-I stimulated	--
40	chr7:66805400-66808200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr7:66805400-66808400	Weak transcription	Rectal Mucosa Donor 29	rectum
42	chr7:66805400-66809000	Weak transcription	Fetal Heart	heart
43	chr7:66805400-66809200	Weak transcription	Ovary	ovary
44	chr7:66805800-66808600	Weak transcription	Left Ventricle	heart
45	chr7:66806200-66813400	Weak transcription	Sigmoid Colon	Sigmoid Colon
46	chr7:66806400-66809600	Weak transcription	Brain Substantia Nigra	brain
47	chr7:66806600-66808400	Weak transcription	Primary monocytes fromperipheralblood	blood
48	chr7:66806600-66809600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
49	chr7:66806600-66810000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
50	chr7:66806800-66808200	Strong transcription	Right Ventricle	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links