Variant report

Variant	rs72797369
Chromosome Location	chr2:39078774-39078775
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:38977095..38978891-chr2:39077165..39078784,2	MCF-7	breast:
2	chr2:38973701..38976718-chr2:39077217..39081288,3	K562	blood:
3	chr2:39076189..39078927-chr4:92754563..92756152,2	MCF-7	breast:
4	chr2:39075448..39080892-chr2:39081993..39084972,5	K562	blood:

Variant related genes	Relation type
ENSG00000163214	Chromatin interaction
ENSG00000115875	Chromatin interaction
ENSG00000152147	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs2373469	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2373471	0.92[AFR][1000 genomes]
rs3099937	0.90[EUR][1000 genomes]
rs3112165	0.90[EUR][1000 genomes]
rs61736780	0.88[AFR][1000 genomes]
rs6736353	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72797376	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72797386	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72797392	0.92[AFR][1000 genomes]
rs72797401	0.90[AFR][1000 genomes]
rs72797402	0.87[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916059	chr2:38332341-39119398	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	143 gene(s)	inside rSNPs	diseases
2	nsv9646	chr2:38358311-39082189	Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers 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	141 gene(s)	inside rSNPs	diseases
3	nsv2692	chr2:39065768-39111871	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:39006400-39085600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr2:39026600-39079800	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr2:39030600-39088200	Weak transcription	Fetal Heart	heart
4	chr2:39038800-39095600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr2:39038800-39102200	Weak transcription	Gastric	stomach
6	chr2:39039000-39085400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr2:39039000-39090000	Weak transcription	Esophagus	oesophagus
8	chr2:39039000-39101200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr2:39039000-39102000	Weak transcription	Colonic Mucosa	Colon
10	chr2:39042800-39080600	Weak transcription	Small Intestine	intestine
11	chr2:39043600-39079800	Weak transcription	Right Ventricle	heart
12	chr2:39050400-39079800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
13	chr2:39050400-39079800	Weak transcription	Spleen	Spleen
14	chr2:39050400-39088000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
15	chr2:39053800-39080200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
16	chr2:39053800-39080600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
17	chr2:39055000-39080000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr2:39055200-39085600	Weak transcription	Psoas Muscle	Psoas
19	chr2:39055600-39080000	Weak transcription	NH-A	brain
20	chr2:39055600-39080600	Weak transcription	Hela-S3	cervix
21	chr2:39055600-39080600	Weak transcription	K562	blood
22	chr2:39057000-39086200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr2:39058000-39087800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr2:39060000-39080000	Weak transcription	Lung	lung
25	chr2:39062400-39083400	Weak transcription	NHEK	skin
26	chr2:39063600-39079800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
27	chr2:39063600-39080600	Weak transcription	Primary neutrophils fromperipheralblood	blood
28	chr2:39063600-39088400	Weak transcription	Placenta Amnion	Placenta Amnion
29	chr2:39064000-39080000	Weak transcription	Fetal Brain Male	brain
30	chr2:39064200-39079800	Weak transcription	Thymus	Thymus
31	chr2:39064400-39081000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
32	chr2:39064600-39079800	Weak transcription	H9 Cell Line	embryonic stem cell
33	chr2:39065200-39080600	Weak transcription	Colon Smooth Muscle	Colon
34	chr2:39065800-39079800	Weak transcription	Liver	Liver
35	chr2:39066000-39080000	Weak transcription	Brain Hippocampus Middle	brain
36	chr2:39066800-39079800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
37	chr2:39067200-39090200	Weak transcription	Stomach Mucosa	stomach
38	chr2:39068400-39090600	Strong transcription	HUES64 Cell Line	embryonic stem cell
39	chr2:39069000-39078800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
40	chr2:39069000-39079800	Weak transcription	Brain Angular Gyrus	brain
41	chr2:39069600-39080000	Weak transcription	Skeletal Muscle Male	skeletal muscle
42	chr2:39070400-39080200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
43	chr2:39070600-39079800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
44	chr2:39070600-39079800	Weak transcription	Muscle Satellite Cultured Cells	--
45	chr2:39070600-39079800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr2:39070600-39079800	Weak transcription	Aorta	Aorta
47	chr2:39070600-39079800	Weak transcription	Brain Substantia Nigra	brain
48	chr2:39070600-39079800	Weak transcription	Duodenum Mucosa	Duodenum
49	chr2:39070600-39080000	Weak transcription	Primary B cells from cord blood	blood
50	chr2:39070600-39080000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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