Variant report

Variant	rs55669940
Chromosome Location	chr7:78378074-78378075
allele	-/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 106 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:102)

rs_ID	r²[population]
rs10228359	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10228963	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10229438	0.96[EUR][1000 genomes]
rs10229458	0.96[EUR][1000 genomes]
rs10230190	0.96[EUR][1000 genomes]
rs10230478	0.96[EUR][1000 genomes]
rs10230501	0.96[EUR][1000 genomes]
rs10231465	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10233033	0.96[EUR][1000 genomes]
rs10243772	0.96[EUR][1000 genomes]
rs10243883	0.96[EUR][1000 genomes]
rs10256389	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10272085	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10273632	0.96[EUR][1000 genomes]
rs10953681	0.96[EUR][1000 genomes]
rs10953687	0.96[EUR][1000 genomes]
rs11760430	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11763541	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11768142	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11768372	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11768397	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11770561	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11770565	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11772790	0.96[EUR][1000 genomes]
rs11773249	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12530747	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12530771	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12530773	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12530792	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12531353	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12531547	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12531558	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12533182	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12533194	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12533269	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12533873	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12534669	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12534800	0.94[EUR][1000 genomes]
rs12535118	0.91[EUR][1000 genomes]
rs12536628	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12536952	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12536959	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12537842	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12538687	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12538706	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12539657	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12540478	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12540572	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12540597	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs13240011	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1496765	0.82[EUR][1000 genomes]
rs28502814	0.91[EUR][1000 genomes]
rs28565439	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs28650857	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35895217	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs55827541	1.00[EUR][1000 genomes]
rs55984124	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs56161537	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56165236	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs56277847	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs66495951	0.96[EUR][1000 genomes]
rs6946747	1.00[EUR][1000 genomes]
rs6953739	0.96[EUR][1000 genomes]
rs73135509	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73135518	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73135526	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73145170	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs73145178	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs73145192	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs73145196	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs73145199	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs73147023	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73147024	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs73147031	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73147034	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73147035	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73147039	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73147058	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73149076	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73149082	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73149083	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73149085	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73149086	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs73149096	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73150705	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73150708	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73150717	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73150732	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73150760	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73150764	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73150767	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73150783	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73150785	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73150787	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73150791	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73150794	0.96[EUR][1000 genomes]
rs73152411	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73152421	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73152427	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73152434	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73152443	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs73152448	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022199	chr7:78054639-78469370	Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv538986	chr7:78054639-78469370	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv1019355	chr7:78319575-78399845	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv607657	chr7:78329795-78483211	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:78363600-78380400	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr7:78372400-78391600	Weak transcription	Pancreas	Pancrea
3	chr7:78372400-78395200	Weak transcription	Aorta	Aorta
4	chr7:78373800-78378400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr7:78374200-78379200	Enhancers	HUES48 Cell Line	embryonic stem cell
6	chr7:78374200-78379200	Enhancers	iPS-18 Cell Line	embryonic stem cell
7	chr7:78374800-78379800	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr7:78375000-78379000	Enhancers	HUES64 Cell Line	embryonic stem cell
9	chr7:78375400-78378400	Weak transcription	Brain Cingulate Gyrus	brain
10	chr7:78375800-78381000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr7:78376000-78378400	Weak transcription	Brain Hippocampus Middle	brain
12	chr7:78376000-78378400	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr7:78376000-78380600	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr7:78376000-78384600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr7:78376200-78378200	Weak transcription	H1 Cell Line	embryonic stem cell
16	chr7:78377200-78378200	Weak transcription	Fetal Brain Male	brain
17	chr7:78377200-78378600	Weak transcription	Fetal Brain Female	brain
18	chr7:78377200-78381000	Weak transcription	Skeletal Muscle Female	skeletal muscle
19	chr7:78377200-78384000	Weak transcription	Psoas Muscle	Psoas
20	chr7:78377200-78385400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr7:78377400-78378400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
22	chr7:78377400-78378600	Weak transcription	Brain Substantia Nigra	brain
23	chr7:78377400-78380600	Weak transcription	Brain Anterior Caudate	brain
24	chr7:78377800-78378400	Enhancers	iPS-20b Cell Line	embryonic stem cell
25	chr7:78378000-78378800	Enhancers	HUES6 Cell Line	embryonic stem cell
26	chr7:78378000-78381000	Enhancers	iPS-15b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links