Variant report

Variant	rs10797662
Chromosome Location	chr1:180986077-180986078
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:180983905..180988219-chr1:181056330..181058723,4	MCF-7	breast:
2	chr1:180984431..180986737-chr1:181057184..181059285,2	MCF-7	breast:
3	chr1:180977108..180979634-chr1:180985883..180988522,3	K562	blood:
4	chr1:180985687..180988379-chr1:181056643..181059315,2	K562	blood:

Variant related genes	Relation type
ENSG00000162783	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10494536	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10797663	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11584852	0.82[EUR][1000 genomes]
rs12752307	0.84[EUR][1000 genomes]
rs1411479	0.85[EUR][1000 genomes]
rs2225332	0.86[EUR][1000 genomes]
rs3789361	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3827708	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6425659	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs71516924	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7528255	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7546157	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7556005	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs883859	0.85[AMR][1000 genomes];0.88[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	nsv1014404	chr1:180770155-181090200	Weak transcription Active TSS Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	97 gene(s)	inside rSNPs	diseases
2	esv3342865	chr1:180933678-181018012	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	esv3383831	chr1:180937224-181029755	Strong transcription Active TSS Weak transcription Genic enhancers Flanking Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
4	nsv1011081	chr1:180973159-181135953	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	95 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:180940400-180988400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr1:180959200-180990800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr1:180973800-180988200	Weak transcription	Fetal Brain Male	brain
4	chr1:180973800-180989600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr1:180973800-180990600	Weak transcription	Colonic Mucosa	Colon
6	chr1:180973800-180990800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr1:180974000-180990800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr1:180974400-180990000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr1:180974600-180986600	Weak transcription	Fetal Intestine Large	intestine
10	chr1:180974600-180988200	Weak transcription	Gastric	stomach
11	chr1:180974600-180990000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr1:180974600-180990600	Weak transcription	Liver	Liver
13	chr1:180974600-180990600	Weak transcription	Fetal Muscle Trunk	muscle
14	chr1:180974600-180990600	Weak transcription	Fetal Muscle Leg	muscle
15	chr1:180974800-180989800	Weak transcription	H1 Cell Line	embryonic stem cell
16	chr1:180974800-180990800	Weak transcription	Rectal Mucosa Donor 31	rectum
17	chr1:180975000-180989600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr1:180975000-180990000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
19	chr1:180975200-180990200	Weak transcription	HUES6 Cell Line	embryonic stem cell
20	chr1:180976400-180987000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr1:180978800-180986200	Enhancers	Primary monocytes fromperipheralblood	blood
22	chr1:180980000-180991000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr1:180980400-180990600	Weak transcription	Fetal Stomach	stomach
24	chr1:180980600-180989600	Weak transcription	HUES64 Cell Line	embryonic stem cell
25	chr1:180980800-180986600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr1:180980800-180988200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chr1:180980800-180988600	Weak transcription	Fetal Brain Female	brain
28	chr1:180980800-180989400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr1:180980800-180989600	Weak transcription	Pancreatic Islets	Pancreatic Islet
30	chr1:180980800-180989800	Weak transcription	HUES48 Cell Line	embryonic stem cell
31	chr1:180980800-180990000	Weak transcription	Colon Smooth Muscle	Colon
32	chr1:180981000-180986800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
33	chr1:180981000-180987200	Weak transcription	Skeletal Muscle Male	skeletal muscle
34	chr1:180981000-180988000	Weak transcription	Brain Germinal Matrix	brain
35	chr1:180981000-180988400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
36	chr1:180981000-180990200	Weak transcription	NH-A	brain
37	chr1:180981000-180990600	Weak transcription	Stomach Smooth Muscle	stomach
38	chr1:180981200-180988200	Weak transcription	Left Ventricle	heart
39	chr1:180981200-180988600	Weak transcription	Hela-S3	cervix
40	chr1:180981200-180990400	Weak transcription	Rectal Smooth Muscle	rectum
41	chr1:180981200-180991000	Weak transcription	Esophagus	oesophagus
42	chr1:180981400-180988200	Weak transcription	Brain Anterior Caudate	brain
43	chr1:180981400-180989600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
44	chr1:180981600-180986600	Weak transcription	Cortex derived primary cultured neurospheres	brain
45	chr1:180981600-180986600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
46	chr1:180981600-180986600	Weak transcription	K562	blood
47	chr1:180981600-180987800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
48	chr1:180981600-180987800	Weak transcription	A549	lung
49	chr1:180981600-180988200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
50	chr1:180981600-180989600	Weak transcription	Fetal Kidney	kidney

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