Variant report

Variant	rs55767073
Chromosome Location	chr17:38376843-38376844
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr17:38374160..38377020-chr17:38442777..38445786,6	K562	blood:
2	chr17:38346506..38348012-chr17:38375510..38377087,2	MCF-7	breast:
3	chr17:38335879..38338134-chr17:38374200..38376894,2	MCF-7	breast:
4	chr17:38375087..38377704-chr17:38472815..38475239,3	MCF-7	breast:
5	chr17:38374332..38376938-chr17:38443051..38445440,2	MCF-7	breast:
6	chr17:38374207..38376996-chr17:38442281..38444578,5	K562	blood:
7	chr17:38374494..38377034-chr17:38473243..38475629,2	K562	blood:

Variant related genes	Relation type
ENSG00000094804	Chromatin interaction
ENSG00000131759	Chromatin interaction
ENSG00000108352	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs11078940	0.84[EUR][1000 genomes]
rs16965687	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2280400	0.83[AMR][1000 genomes]
rs28537537	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs28663197	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs45567834	0.83[AMR][1000 genomes]
rs55772196	0.83[AMR][1000 genomes]
rs55835834	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs55991953	0.83[AMR][1000 genomes]
rs56029626	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs59018914	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs59861136	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs72836633	0.83[AMR][1000 genomes]
rs72836634	0.88[AMR][1000 genomes]
rs72836635	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72836636	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72836639	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs72836640	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs72836641	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72836642	0.92[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72836648	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7359537	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9892404	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9892973	0.82[AMR][1000 genomes]
rs9893520	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9897092	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9904021	0.80[AMR][1000 genomes]
rs9906409	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9907683	0.83[AMR][1000 genomes]
rs9908034	0.84[AMR][1000 genomes]
rs9911840	0.80[AMR][1000 genomes]
rs9912082	0.80[AMR][1000 genomes]
rs9916782	0.85[AMR][1000 genomes];0.86[EUR][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	nsv833444	chr17:38242823-38437280	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	62 gene(s)	inside rSNPs	diseases
2	nsv525796	chr17:38306365-38405037	Active TSS Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	esv3325187	chr17:38374651-38377199	Flanking Active TSS Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	7 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	chr17:38374600-38377800	Active TSS	Brain Angular Gyrus	brain
2	chr17:38375000-38377000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr17:38375000-38377200	Active TSS	HSMMtube	muscle
4	chr17:38375400-38377200	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr17:38375400-38377200	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr17:38376200-38377800	Enhancers	Spleen	Spleen
7	chr17:38376400-38377000	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
8	chr17:38376400-38377000	Flanking Active TSS	Dnd41	blood
9	chr17:38376400-38377200	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr17:38376400-38377200	Enhancers	Sigmoid Colon	Sigmoid Colon
11	chr17:38376400-38377400	Enhancers	Small Intestine	intestine
12	chr17:38376600-38377000	Enhancers	Fetal Thymus	thymus
13	chr17:38376600-38377200	Enhancers	Primary monocytes fromperipheralblood	blood
14	chr17:38376600-38377200	Enhancers	Primary B cells from cord blood	blood
15	chr17:38376600-38377200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
16	chr17:38376600-38377200	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
17	chr17:38376600-38377200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
18	chr17:38376600-38377200	Enhancers	Fetal Stomach	stomach
19	chr17:38376600-38377200	Weak transcription	Stomach Mucosa	stomach
20	chr17:38376600-38377200	Active TSS	Hela-S3	cervix
21	chr17:38376600-38377400	Weak transcription	Duodenum Smooth Muscle	Duodenum
22	chr17:38376600-38377400	Enhancers	Fetal Muscle Trunk	muscle
23	chr17:38376600-38377400	Enhancers	Placenta	Placenta
24	chr17:38376600-38377400	Enhancers	Lung	lung
25	chr17:38376600-38377600	Enhancers	Primary hematopoietic stem cells	blood
26	chr17:38376600-38377600	Enhancers	Primary T helper naive cells from peripheral blood	blood
27	chr17:38376600-38377600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
28	chr17:38376600-38377600	Enhancers	Brain Substantia Nigra	brain
29	chr17:38376600-38377800	Enhancers	Primary neutrophils fromperipheralblood	blood
30	chr17:38376600-38377800	Enhancers	Primary B cells from peripheral blood	blood
31	chr17:38376600-38377800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
32	chr17:38376600-38377800	Enhancers	Primary T helper cells fromperipheralblood	blood
33	chr17:38376600-38377800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
34	chr17:38376600-38377800	Enhancers	Liver	Liver
35	chr17:38376600-38378200	Enhancers	Primary T cells fromperipheralblood	blood
36	chr17:38376600-38378800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
37	chr17:38376600-38380000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr17:38376600-38380200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
39	chr17:38376600-38380800	Weak transcription	Colon Smooth Muscle	Colon
40	chr17:38376600-38380800	Weak transcription	Fetal Lung	lung
41	chr17:38376600-38389200	Weak transcription	Esophagus	oesophagus
42	chr17:38376600-38389800	Weak transcription	Colonic Mucosa	Colon
43	chr17:38376600-38389800	Weak transcription	Ovary	ovary
44	chr17:38376600-38390400	Weak transcription	Placenta Amnion	Placenta Amnion
45	chr17:38376600-38392200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
46	chr17:38376600-38393200	Weak transcription	Fetal Heart	heart
47	chr17:38376600-38400400	Weak transcription	Psoas Muscle	Psoas
48	chr17:38376600-38412400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
49	chr17:38376600-38416800	Weak transcription	Aorta	Aorta
50	chr17:38376800-38377000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links